minhdb/2015-GCAT
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

GCAT5.0 released

Browse Source
This commit is contained in:
Minh
2015-04-10 15:12:45 -05:00
commit 67544a10e6
257 changed files with 61661 additions and 0 deletions
Download Patch File Download Diff File Expand all files Collapse all files
Testing/GCAT_Automated_Test_Script/Comparison Plots/Growth_Threshold Plot.pdf
Executable
BIN
View File
Binary file not shown.
Testing/GCAT_Automated_Test_Script/Comparison Plots/Inoculation Plot.pdf
Executable
BIN
View File
Binary file not shown.
Testing/GCAT_Automated_Test_Script/Comparison Plots/Media_Background Plot.pdf
Executable
BIN
View File
Binary file not shown.
Testing/GCAT_Automated_Test_Script/Comparison Plots/OD_Transform Plot.pdf
Executable
BIN
View File
Binary file not shown.
Testing/GCAT_Automated_Test_Script/Comparison Plots/Points_Ignored Plot.pdf
Executable
BIN
View File
Binary file not shown.
Testing/GCAT_Automated_Test_Script/Comparison_Datasets/Growth_Threshold.txt
Executable
+90
View File
@@ -0,0 +1,90 @@
Command:
Rscript compare_gcat_outputs.R ./GCAT2/Growth_Threshold.txt ./GCAT3/Growth_Threshold.txt Growth_Threshold
Summary:
Mode TRUE NA's
logical 96 0
[1] TRUE TRUE TRUE TRUE TRUE TRUE
GCAT2:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source
1 Control strain plate Empty Empty Empty
2 Control strain plate Empty Empty Empty
3 Control strain plate Empty Empty Empty
4 Control strain plate Empty Empty Empty
5 Control strain plate Empty Empty Empty
6 Control strain plate Empty Empty Empty
GCAT3:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source
1 Control strain plate Empty Empty Empty
2 Control strain plate Empty Empty Empty
3 Control strain plate Empty Empty Empty
4 Control strain plate Empty Empty Empty
5 Control strain plate Empty Empty Empty
6 Control strain plate Empty Empty Empty
Specific Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 95
Total Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 95
Lag Time Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 95
Testing/GCAT_Automated_Test_Script/Comparison_Datasets/Inoculation.txt
Executable
+110
View File
@@ -0,0 +1,110 @@
Command:
Rscript compare_gcat_outputs.R ./GCAT2/Inoculation.txt ./GCAT3/Inoculation.txt Inoculation
Summary:
Mode TRUE NA's
logical 96 0
[1] TRUE TRUE TRUE TRUE TRUE TRUE
GCAT2:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source
1 Control strain plate Empty Empty Empty
2 Control strain plate Empty Empty Empty
3 Control strain plate Empty Empty Empty
4 Control strain plate Empty Empty Empty
5 Control strain plate Empty Empty Empty
6 Control strain plate Empty Empty Empty
GCAT3:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source Media.Definition
1 Control strain plate Empty Empty Empty None
2 Control strain plate Empty Empty Empty None
3 Control strain plate Empty Empty Empty None
4 Control strain plate Empty Empty Empty None
5 Control strain plate Empty Empty Empty None
6 Control strain plate Empty Empty Empty None
Specific Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
Total Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
Lag Time Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
null device
1
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source
<0 rows> (or 0-length row.names)
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source Media.Definition
<0 rows> (or 0-length row.names)
Testing/GCAT_Automated_Test_Script/Comparison_Datasets/Media_Background.txt
Executable
+110
View File
@@ -0,0 +1,110 @@
Command:
Rscript compare_gcat_outputs.R ./GCAT2/Media_Background.txt ./GCAT3/Media_Background.txt Media_Background
Summary:
Mode TRUE NA's
logical 96 0
[1] TRUE TRUE TRUE TRUE TRUE TRUE
GCAT2:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source
1 Control strain plate Empty Empty Empty
2 Control strain plate Empty Empty Empty
3 Control strain plate Empty Empty Empty
4 Control strain plate Empty Empty Empty
5 Control strain plate Empty Empty Empty
6 Control strain plate Empty Empty Empty
GCAT3:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source Media.Definition
1 Control strain plate Empty Empty Empty None
2 Control strain plate Empty Empty Empty None
3 Control strain plate Empty Empty Empty None
4 Control strain plate Empty Empty Empty None
5 Control strain plate Empty Empty Empty None
6 Control strain plate Empty Empty Empty None
Specific Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 50
Total Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 50
Lag Time Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 50
null device
1
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source
<0 rows> (or 0-length row.names)
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source Media.Definition
<0 rows> (or 0-length row.names)
Testing/GCAT_Automated_Test_Script/Comparison_Datasets/OD_Transform.txt
Executable
+110
View File
@@ -0,0 +1,110 @@
Command:
Rscript compare_gcat_outputs.R ./GCAT2/OD_Transform.txt ./GCAT3/OD_Transform.txt OD_Transform
Summary:
Mode TRUE NA's
logical 96 0
[1] TRUE TRUE TRUE TRUE TRUE TRUE
GCAT2:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source
1 Control strain plate Empty Empty Empty
2 Control strain plate Empty Empty Empty
3 Control strain plate Empty Empty Empty
4 Control strain plate Empty Empty Empty
5 Control strain plate Empty Empty Empty
6 Control strain plate Empty Empty Empty
GCAT3:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source Media.Definition
1 Control strain plate Empty Empty Empty None
2 Control strain plate Empty Empty Empty None
3 Control strain plate Empty Empty Empty None
4 Control strain plate Empty Empty Empty None
5 Control strain plate Empty Empty Empty None
6 Control strain plate Empty Empty Empty None
Specific Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
Total Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
Lag Time Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
null device
1
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source
<0 rows> (or 0-length row.names)
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source Media.Definition
<0 rows> (or 0-length row.names)
Testing/GCAT_Automated_Test_Script/Comparison_Datasets/Points_Ignored.txt
Executable
+110
View File
@@ -0,0 +1,110 @@
Command:
Rscript compare_gcat_outputs.R ./GCAT2/Points_Ignored.txt ./GCAT3/Points_Ignored.txt Points_Ignored
Summary:
Mode TRUE NA's
logical 96 0
[1] TRUE TRUE TRUE TRUE TRUE TRUE
GCAT2:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source
1 Control strain plate Empty Empty Empty
2 Control strain plate Empty Empty Empty
3 Control strain plate Empty Empty Empty
4 Control strain plate Empty Empty Empty
5 Control strain plate Empty Empty Empty
6 Control strain plate Empty Empty Empty
GCAT3:
row plate well media strain model spec.growth
1 1 YPDAFEXglucoseTests_2-25-10 A01 None Empty <NA>: skipped NA
2 2 YPDAFEXglucoseTests_2-25-10 B01 None Empty <NA>: skipped NA
3 3 YPDAFEXglucoseTests_2-25-10 C01 None Empty <NA>: skipped NA
4 4 YPDAFEXglucoseTests_2-25-10 D01 None Empty <NA>: skipped NA
5 5 YPDAFEXglucoseTests_2-25-10 E01 None Empty <NA>: skipped NA
6 6 YPDAFEXglucoseTests_2-25-10 F01 None Empty <NA>: skipped NA
tot.growth lag.time inoc.OD good.fit empty asymp tank reach other
1 NA NA NA NA E - - NA NA
2 NA NA NA NA E - - NA NA
3 NA NA NA NA E - - NA NA
4 NA NA NA NA E - - NA NA
5 NA NA NA NA E - - NA NA
6 NA NA NA NA E - - NA NA
pdf.file page.no
1 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf 2
2 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf 3
3 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf 4
4 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf 5
5 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf 6
6 YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf 7
Destination.plate.name Well.ID Plate.source Well.Source Media.Definition
1 Control strain plate Empty Empty Empty None
2 Control strain plate Empty Empty Empty None
3 Control strain plate Empty Empty Empty None
4 Control strain plate Empty Empty Empty None
5 Control strain plate Empty Empty Empty None
6 Control strain plate Empty Empty Empty None
Specific Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
Total Growth Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
Lag Time Comparison Summary:
Min. 1st Qu. Median Mean 3rd Qu. Max. NA's
1 1 1 1 1 1 49
null device
1
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source
<0 rows> (or 0-length row.names)
[1] row plate well
[4] media strain model
[7] spec.growth tot.growth lag.time
[10] inoc.OD good.fit empty
[13] asymp tank reach
[16] other pdf.file page.no
[19] Destination.plate.name Well.ID Plate.source
[22] Well.Source Media.Definition
<0 rows> (or 0-length row.names)
Testing/GCAT_Automated_Test_Script/GCAT2/Growth_Threshold.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 11 "Control strain plate" "Sample" "USDA" ""
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 12 "Control strain plate" "Sample" "USDA" ""
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 13 "Control strain plate" "Sample" "USDA" ""
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 14 "Control strain plate" "Sample" "USDA" ""
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 15 "Control strain plate" "Sample" "USDA" ""
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 16 "Control strain plate" "Sample" "USDA" ""
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 19 "Control strain plate" "Sample" "USDA" ""
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 20 "Control strain plate" "Sample" "USDA" ""
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 21 "Control strain plate" "Sample" "USDA" ""
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 22 "Control strain plate" "Sample" "USDA" ""
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 23 "Control strain plate" "Sample" "USDA" ""
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 24 "Control strain plate" "Sample" "USDA" ""
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 27 "Control strain plate" "Sample" "Internal source" ""
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 28 "Control strain plate" "Sample" "Internal source" ""
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 29 "Control strain plate" "Sample" "Internal source" ""
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 30 "Control strain plate" "Sample" "Internal source" ""
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 31 "Control strain plate" "Sample" "Internal source" ""
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 32 "Control strain plate" "Sample" "Internal source" ""
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 35 "Control strain plate" "Sample" "ATCC" ""
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 36 "Control strain plate" "Sample" "ATCC" ""
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 37 "Control strain plate" "Sample" "ATCC" ""
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 38 "Control strain plate" "Sample" "ATCC" ""
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 39 "Control strain plate" "Sample" "ATCC" ""
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 40 "Control strain plate" "Sample" "ATCC" ""
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 51 "Control strain plate" "Sample" "USDA" ""
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 52 "Control strain plate" "Sample" "USDA" ""
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 53 "Control strain plate" "Sample" "USDA" ""
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 54 "Control strain plate" "Sample" "USDA" ""
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 55 "Control strain plate" "Sample" "USDA" ""
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 56 "Control strain plate" "Sample" "USDA" ""
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 59 "Control strain plate" "Sample" "USDA" ""
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 60 "Control strain plate" "Sample" "USDA" ""
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 61 "Control strain plate" "Sample" "USDA" ""
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 62 "Control strain plate" "Sample" "USDA" ""
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 63 "Control strain plate" "Sample" "USDA" ""
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104909957772007 1.38120323294419 3.5400282340856 0.0841025860310471 3.54895808838236 "I " "-" "-" 99.9341701264792 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 64 "Control strain plate" "Sample" "USDA" ""
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 67 "Control strain plate" "Sample" "Internal source" ""
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 68 "Control strain plate" "Sample" "Internal source" ""
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 69 "Control strain plate" "Sample" "Internal source" ""
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 70 "Control strain plate" "Sample" "Internal source" ""
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 71 "Control strain plate" "Sample" "Internal source" ""
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 72 "Control strain plate" "Sample" "Internal source" ""
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 75 "Control strain plate" "Sample" "ATCC" ""
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 76 "Control strain plate" "Sample" "ATCC" ""
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 77 "Control strain plate" "Sample" "ATCC" ""
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 78 "Control strain plate" "Sample" "ATCC" ""
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 79 "Control strain plate" "Sample" "ATCC" ""
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 80 "Control strain plate" "Sample" "ATCC" ""
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:58:22
# completed: 2013-11-26 11:58:30
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 1.37
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT2/Inoculation.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "logistic 4-par." 0.00513390947239015 0.0876620001483475 0.000551696237099386 0.110874812224549 2.59465563414583 "I " "-" "-" 92.6741690962163 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 11 "Control strain plate" "Sample" "USDA" ""
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.0460029361983442 0.240392472194083 2.23932295697808 0.0761318166887226 2.23914120606195 "I " "-" "-" 99.9998792920065 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 12 "Control strain plate" "Sample" "USDA" ""
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0731423187209926 0.432756582200227 2.94212753267929 0.0918532887250707 2.53605103328100 "I " "-" "-" 99.9999952623947 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 13 "Control strain plate" "Sample" "USDA" ""
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.0874988417362888 0.677479207265783 3.24633816769258 0.0800120483977169 2.87924387138478 "I " "-" "-" 99.9997657328472 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 14 "Control strain plate" "Sample" "USDA" ""
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "logistic 4-par." 0.0833321479006846 0.847046661111157 2.77452557039409 0.0752193280284603 2.65845234206059 "I " "-" "-" 99.9918661852256 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 15 "Control strain plate" "Sample" "USDA" ""
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0589669239899499 1.11882517761774 1.20640826390575 0.0520133170774622 1.79342170973749 "I " "L" "-" 98.6708254147882 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 16 "Control strain plate" "Sample" "USDA" ""
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 19 "Control strain plate" "Sample" "USDA" ""
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0459986845139891 0.254831348162179 1.58986879723202 0.112101681081809 1.70864325519431 "I " "-" "-" 99.9999955467498 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 20 "Control strain plate" "Sample" "USDA" ""
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "logistic 4-par." 0.0945868089752667 0.425786653122546 2.58713136878942 0.130435146775932 2.46359052165421 "I " "-" "-" 99.9999999852335 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 21 "Control strain plate" "Sample" "USDA" ""
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.121127547817384 0.685559786610674 2.97587534293576 0.107503741316800 2.89947354509395 "I " "-" "-" 99.9999999800904 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 22 "Control strain plate" "Sample" "USDA" ""
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.129882547594034 1.04160860310247 2.77302797649945 0.124135599690527 2.75950289629815 "I " "-" "-" 99.9999893489067 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 23 "Control strain plate" "Sample" "USDA" ""
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.120898412251709 1.32901254481953 2.55988604768709 0.128599154705507 2.86661364643987 "I " "-" "-" 99.9926206656861 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 24 "Control strain plate" "Sample" "USDA" ""
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 27 "Control strain plate" "Sample" "Internal source" ""
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.0493379998716343 0.254045397275896 0.523551303454949 0.0888407216209763 1.54716159908116 "I " "-" "-" 99.999996774836 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 28 "Control strain plate" "Sample" "Internal source" ""
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.0931934856727062 0.410238463163683 1.5559350402868 0.0929949311576475 2.39970752160387 "I " "-" "-" 99.9999999909852 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 29 "Control strain plate" "Sample" "Internal source" ""
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.124582742678508 0.661996390783556 2.01051598351255 0.0941849078026622 3.20379613427986 "I " "-" "-" 99.99999999958 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 30 "Control strain plate" "Sample" "Internal source" ""
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.127931259194577 0.983986521455829 1.92761351717956 0.0938101603743178 2.98526874472308 "I " "L" "-" 99.9999999792319 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 31 "Control strain plate" "Sample" "Internal source" ""
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.115525592792629 1.29381927826542 1.74141731218751 0.0890243231205414 2.81287527921917 "I " "L" "-" 99.9999132687566 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 32 "Control strain plate" "Sample" "Internal source" ""
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 35 "Control strain plate" "Sample" "ATCC" ""
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0459359326623486 0.248154224199646 0.561170567204033 0.0640432006076648 1.37098828428177 "I " "-" "-" 99.999987765412 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 36 "Control strain plate" "Sample" "ATCC" ""
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "richards 5-par." 0.0944346858619649 0.470200890606434 1.71183574726233 0.0646296482425968 2.23793506472523 "I " "-" "-" 99.9999948776095 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 37 "Control strain plate" "Sample" "ATCC" ""
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.121520620892205 0.708619340533668 1.92450998620590 0.0814089778419187 2.69846627998123 "I " "-" "-" 99.999997890164 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 38 "Control strain plate" "Sample" "ATCC" ""
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.128733155060522 0.981131957422723 1.88976382070790 0.0912605323267595 2.90166520842437 "I " "-" "-" 99.99998839196 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 39 "Control strain plate" "Sample" "ATCC" ""
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.122721595892799 1.30941121383320 1.88154915349030 0.0757435729961564 3.02277302645685 "I " "L" "-" 99.9995972781622 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 40 "Control strain plate" "Sample" "ATCC" ""
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.0831016694707274 1.26159681822536 9.46105867276385 -0.0156072095149273 2.2176336607405 "E*" "L" "-" 97.688829175306 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0913331265842828 0.977676293223671 3.74285300700227 0.0585493648561697 3.41803212615394 "I " "-" "-" 99.9967476790949 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 51 "Control strain plate" "Sample" "USDA" ""
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0901758840515798 1.02343733695468 3.75854949762210 0.0564421526774237 3.35821455308179 "I " "-" "-" 99.9932921305762 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 52 "Control strain plate" "Sample" "USDA" ""
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.0876534489375277 1.05107784214595 4.08053328986319 0.0505529065684702 3.43101493489121 "I " "-" "-" 99.9881389964051 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 53 "Control strain plate" "Sample" "USDA" ""
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.0852505870016418 1.09523234209277 4.2590088920043 0.0546791531091333 3.32240181027460 "I " "-" "-" 99.9643198816725 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 54 "Control strain plate" "Sample" "USDA" ""
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.0834062493896505 1.16156601844817 4.17519830688 0.0506329107469832 3.24662867008000 "I " "-" "-" 99.8770810687182 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 55 "Control strain plate" "Sample" "USDA" ""
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0746869173042796 1.29883332508854 4.26111988760969 0.0555468732725124 3.36340266867229 "I " "-" "-" 98.4357653421947 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 56 "Control strain plate" "Sample" "USDA" ""
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.114235639585196 1.11603265279451 2.80462732513778 0.106026173457393 3.07479264063223 "I " "-" "-" 99.9998418759963 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 59 "Control strain plate" "Sample" "USDA" ""
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.114214452912468 1.14545395160069 3.03642647181899 0.0901903141548646 3.13967373959077 "I " "-" "-" 99.9996775720213 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 60 "Control strain plate" "Sample" "USDA" ""
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.113566098365730 1.17951259888145 2.99921572692867 0.0854138714541255 3.20643947548211 "I " "-" "-" 99.9993801531958 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 61 "Control strain plate" "Sample" "USDA" ""
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.112827039764747 1.23081376697016 2.97207411510676 0.090741698149845 3.1895693830433 "I " "-" "-" 99.9983882461922 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 62 "Control strain plate" "Sample" "USDA" ""
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.110948156058339 1.28413133026796 3.09434741751019 0.0853800430755536 3.20897314216817 "I " "-" "-" 99.9945939442068 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 63 "Control strain plate" "Sample" "USDA" ""
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104909957747906 1.37957293880569 3.37657406597065 0.0857328798243138 3.54895808838256 "I " "-" "-" 99.9340923347588 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 64 "Control strain plate" "Sample" "USDA" ""
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.124619613908910 1.02126553518662 2.43053521773110 0.0832928033695586 3.19828565863893 "I " "-" "-" 99.9999984996182 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 67 "Control strain plate" "Sample" "Internal source" ""
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.123242474045102 1.07196388949718 2.44085995606895 0.0747514589944707 3.30084510513645 "I " "-" "-" 99.999994419942 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 68 "Control strain plate" "Sample" "Internal source" ""
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.12090087889886 1.10115777984898 2.35585985916424 0.0719961174673402 3.29576923040073 "I " "L" "-" 99.9999896268808 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 69 "Control strain plate" "Sample" "Internal source" ""
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.119451757970973 1.15953479542773 2.30664009041830 0.0715521817197322 3.20509498580791 "I " "L" "-" 99.9999599907486 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 70 "Control strain plate" "Sample" "Internal source" ""
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.117046866658425 1.23026145665052 2.44407044557878 0.0655027600473694 3.14018976861125 "I " "L" "-" 99.9995689634333 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 71 "Control strain plate" "Sample" "Internal source" ""
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.108331393150974 1.33973156155552 2.51097570573708 0.0649023468973968 3.23212721890241 "I " "-" "-" 99.9822483056319 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 72 "Control strain plate" "Sample" "Internal source" ""
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.121839335523261 1.03094115561518 2.20149868335828 0.071637820344644 2.99659166289555 "I " "-" "-" 99.9998735461218 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 75 "Control strain plate" "Sample" "ATCC" ""
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.123130425236 1.06412474728157 2.46906361902120 0.0564520573406488 3.19928587493649 "I " "-" "-" 99.999891983369 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 76 "Control strain plate" "Sample" "ATCC" ""
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.120973125758535 1.08554405396271 2.46825462758035 0.056549534178326 3.33630531768612 "I " "-" "-" 99.9998814536437 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 77 "Control strain plate" "Sample" "ATCC" ""
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.120740949535359 1.15263316370924 2.5442959513883 0.0522642960780029 3.36496106313701 "I " "-" "-" 99.9996094172831 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 78 "Control strain plate" "Sample" "ATCC" ""
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.121802165325221 1.22599703168728 2.5422560684683 0.056307375634215 3.47334970863554 "I " "-" "-" 99.9989009038885 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 79 "Control strain plate" "Sample" "ATCC" ""
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.112904136231260 1.340836387636 2.56045685725438 0.0581661740243069 3.53967163281617 "I " "-" "-" 99.9786442972454 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 80 "Control strain plate" "Sample" "ATCC" ""
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.097251500241612 1.24804582503984 14.6755074922153 -0.00366567404981066 2.38008868734244 "E*" "L/U" "-" 87.1867004610056 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.35.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:54:35
# completed: 2013-11-26 11:54:45
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 3
# - Minimum growth threshold: 0.05
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT2/Media_Background.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 11 "Control strain plate" "Sample" "USDA" ""
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.0434503343000251 0.253554854675260 2.02165330333884 0.0617033863833638 1.64185698237008 "I " "-" "-" 99.9999736403217 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 12 "Control strain plate" "Sample" "USDA" ""
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0710461374870435 0.446283240058387 2.88921431893203 0.078039465273223 1.94354072341034 "I " "-" "-" 99.9999992879621 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 13 "Control strain plate" "Sample" "USDA" ""
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.0860880819729473 0.688375845522998 3.26587795985316 0.0682375379828597 2.36976256861628 "I " "-" "-" 99.9998854906447 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 14 "Control strain plate" "Sample" "USDA" ""
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "richards 5-par." 0.0855558286818253 0.84851665981466 2.99428931741607 0.0785443237303707 2.50265696873442 "I " "-" "-" 99.9675537192086 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 15 "Control strain plate" "Sample" "USDA" ""
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0590319877346773 1.13131893310060 1.21092069814356 0.0412045752566177 1.79374394529570 "I " "L" "-" 98.6047219117497 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 16 "Control strain plate" "Sample" "USDA" ""
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 19 "Control strain plate" "Sample" "USDA" ""
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0434892612564025 0.274547126811452 1.17986305219729 0.0930562431741175 1.2462515507653 "I " "-" "-" 99.9999459725148 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 20 "Control strain plate" "Sample" "USDA" ""
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "richards 5-par." 0.0897339782050535 0.44725588012243 2.48510022383136 0.111954813319619 1.64728332860566 "I " "-" "-" 99.9999999997907 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 21 "Control strain plate" "Sample" "USDA" ""
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.118704818394586 0.701739899244777 3.00105743862396 0.0902498862365915 2.16060651373925 "I " "-" "-" 99.999999998243 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 22 "Control strain plate" "Sample" "USDA" ""
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.127118789469248 1.06188644325538 2.76198673024551 0.101832988995193 2.2489695413201 "I " "-" "-" 99.9999974728383 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 23 "Control strain plate" "Sample" "USDA" ""
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.118124578641559 1.34963757338040 2.51164992830229 0.105412244128214 2.36610848171534 "I " "-" "-" 99.9956836427274 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 24 "Control strain plate" "Sample" "USDA" ""
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 27 "Control strain plate" "Sample" "Internal source" ""
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.0503915103890343 0.278431850863241 0.230735178823221 0.0667245999493249 1.28125167205809 "I " "-" "-" 99.9999557835925 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 28 "Control strain plate" "Sample" "Internal source" ""
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.0900596817770063 0.426283124892579 1.48660897985453 0.0787853427815937 1.78609838401984 "I " "-" "-" 99.9999999465272 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 29 "Control strain plate" "Sample" "Internal source" ""
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.120932696502068 0.681827053465979 1.98743887548203 0.0750931197769025 2.24806197934911 "I " "-" "-" 99.9999999999806 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 30 "Control strain plate" "Sample" "Internal source" ""
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.124851864857507 1.00554516052416 1.89097308231560 0.0745327038147034 2.45714183902256 "I " "L" "-" 99.9999999978197 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 31 "Control strain plate" "Sample" "Internal source" ""
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.113079038402523 1.31499248437073 1.67061532987960 0.0682108949608626 2.54109072078653 "I " "L" "-" 99.9999648186165 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 32 "Control strain plate" "Sample" "Internal source" ""
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 35 "Control strain plate" "Sample" "ATCC" ""
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0460541020662134 0.26524158772085 0.357238281642297 0.0484389000123124 1.28333178169019 "I " "L" "-" 99.9999287079269 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 36 "Control strain plate" "Sample" "ATCC" ""
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "logistic 4-par." 0.0910355508572168 0.484885690164407 1.68228977771903 0.0503454179292044 2.01406534894519 "I " "-" "-" 99.999999075587 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 37 "Control strain plate" "Sample" "ATCC" ""
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.118532626835200 0.724942396645568 1.93091588614506 0.0650485245853678 2.28064777433602 "I " "-" "-" 99.9999994051425 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 38 "Control strain plate" "Sample" "ATCC" ""
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.125935099476691 1.00060394314497 1.87185854411294 0.0705328954848026 2.43919113300695 "I " "-" "-" 99.9999960758469 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 39 "Control strain plate" "Sample" "ATCC" ""
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.120458286580390 1.32681554802285 1.87312970608357 0.0617649897724031 2.72077052437644 "I " "L" "-" 99.9997697224565 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 40 "Control strain plate" "Sample" "ATCC" ""
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.083026880473868 1.26274912739788 9.6370199491002 -0.0148648394970353 2.22003323483864 "E*" "L" "-" 97.6179798356663 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0837862465621809 0.985589476660035 3.87077447326577 0.172902084515593 2.936554895572 "I " "-" "-" 99.9976660845596 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 51 "Control strain plate" "Sample" "USDA" ""
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0825725388111153 1.03111358478328 3.8935977613249 0.175746057355985 2.95818389639001 "I " "-" "-" 99.9950047689826 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 52 "Control strain plate" "Sample" "USDA" ""
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.0803990851774492 1.05769131646876 4.23452367239061 0.171669910262409 3.05762797860851 "I " "-" "-" 99.9905797580664 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 53 "Control strain plate" "Sample" "USDA" ""
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.078260986900903 1.10176517760371 4.41033894653477 0.174661705124986 2.98245532148831 "I " "-" "-" 99.97078656119 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 54 "Control strain plate" "Sample" "USDA" ""
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.0765359669045422 1.16743187678685 4.33134033283011 0.171774058333315 2.99101843653394 "I " "-" "-" 99.8931141945986 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 55 "Control strain plate" "Sample" "USDA" ""
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0684295063358446 1.30296627125276 4.41039755952004 0.177550778776163 3.02126707953049 "I " "-" "-" 98.542925848239 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 56 "Control strain plate" "Sample" "USDA" ""
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.103961511845496 1.13335005494973 2.84746894877643 0.216147675837119 2.50607784281402 "I " "-" "-" 99.999934749514 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 59 "Control strain plate" "Sample" "USDA" ""
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.104426132027787 1.15952947440466 3.11791461815530 0.202220291175903 2.64629880567713 "I " "-" "-" 99.9998358609235 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 60 "Control strain plate" "Sample" "USDA" ""
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.103564913027715 1.19303695629607 3.08800865283045 0.203591721344972 2.71477777367162 "I " "-" "-" 99.9996508953345 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 61 "Control strain plate" "Sample" "USDA" ""
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.103109984243399 1.24497138884473 3.04906663958604 0.203623320796393 2.68869096385621 "I " "-" "-" 99.9990405446907 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 62 "Control strain plate" "Sample" "USDA" ""
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.101328068865228 1.29683436370675 3.18655040766587 0.203111588999557 2.75266670603191 "I " "-" "-" 99.996339173896 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 63 "Control strain plate" "Sample" "USDA" ""
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.0960414766942334 1.39007056093517 3.47869089975363 0.202353552916657 2.86594136189225 "I " "-" "-" 99.9467189237796 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 64 "Control strain plate" "Sample" "USDA" ""
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.113180265724915 1.03747916133359 2.49766338810221 0.198495309639666 2.64831702967150 "I " "-" "-" 99.99999950571 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 67 "Control strain plate" "Sample" "Internal source" ""
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.112532945731761 1.08681009274574 2.52119628407453 0.186329225710496 2.77398299574405 "I " "-" "-" 99.9999976342956 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 68 "Control strain plate" "Sample" "Internal source" ""
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.110237121553375 1.11602705298285 2.43678055941639 0.187247546937630 2.81184006554946 "I " "-" "-" 99.9999952725547 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 69 "Control strain plate" "Sample" "Internal source" ""
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.109153261238411 1.17453886329702 2.38442334222443 0.183907793076526 2.80879291485336 "I " "-" "-" 99.9999796529525 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 70 "Control strain plate" "Sample" "Internal source" ""
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.107153820876407 1.24345235940033 2.53842674779367 0.178885414386565 2.84792003349477 "I " "-" "-" 99.999726199681 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 71 "Control strain plate" "Sample" "Internal source" ""
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.0990827158819113 1.35146254239763 2.60572114613308 0.180195185614621 2.91808898590255 "I " "-" "-" 99.9858735540263 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 72 "Control strain plate" "Sample" "Internal source" ""
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.110458083084921 1.04485579994439 2.27701838325376 0.188114595684521 2.65931477578895 "I " "-" "-" 99.9999271625885 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 75 "Control strain plate" "Sample" "ATCC" ""
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.112540220994811 1.07487901296182 2.58417196441953 0.171301212668114 2.88882458916344 "I " "-" "-" 99.9999309539298 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 76 "Control strain plate" "Sample" "ATCC" ""
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.110640152738962 1.09653685419261 2.58231557868978 0.171664577469133 2.95663771710228 "I " "-" "-" 99.9999237076305 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 77 "Control strain plate" "Sample" "ATCC" ""
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.110596720564600 1.16275661096821 2.66983121158 0.168291454109896 3.03987519406164 "I " "-" "-" 99.9997284198838 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 78 "Control strain plate" "Sample" "ATCC" ""
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.111561409951938 1.23655979175461 2.66322072814323 0.172114613842357 3.06755684662736 "I " "-" "-" 99.9991978972748 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 79 "Control strain plate" "Sample" "ATCC" ""
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.103366231210924 1.35093549154140 2.67448563817088 0.173610905690015 3.10078735926473 "I " "-" "-" 99.9823958592765 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 80 "Control strain plate" "Sample" "ATCC" ""
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.0898948262289814 1.25317410845682 14.9183477248910 0.115247567652615 2.39076788045153 "E*" "U" "-" 86.9727718976639 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.49.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:41:49
# completed: 2013-11-26 11:42:00
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: 0.093
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 0.05
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT2/OD_Transform.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "logistic 4-par." 0.0051339104025321 0.0886723328566521 0.00109607936061840 0.109864484860788 2.59465563414594 "I " "-" "-" 92.757634946894 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 11 "Control strain plate" "Sample" "USDA" ""
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.046002940306046 0.240507240883085 2.41478235175163 0.0760170490729348 2.23914120606312 "I " "-" "-" 99.9998793491392 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 12 "Control strain plate" "Sample" "USDA" ""
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0731423187284127 0.433505884635671 3.11051947470925 0.0911039861390441 2.53605103328146 "I " "-" "-" 99.9999952705852 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 13 "Control strain plate" "Sample" "USDA" ""
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.0874988417043893 0.678577289035852 3.41249009999581 0.0789139664707765 2.87924387138496 "I " "-" "-" 99.9997661119774 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 14 "Control strain plate" "Sample" "USDA" ""
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "logistic 4-par." 0.0833321480330421 0.84892275974252 2.93134654253266 0.073343229233773 2.65845234206075 "I " "-" "-" 99.991884161003 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 15 "Control strain plate" "Sample" "USDA" ""
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0589669239782459 1.12434511662564 1.29496928736621 0.046493377454031 1.79342170973749 "I " "L" "-" 98.6773509965225 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 16 "Control strain plate" "Sample" "USDA" ""
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 19 "Control strain plate" "Sample" "USDA" ""
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0459986844673101 0.256099056993136 1.74285082231178 0.110833972260523 1.7086432551943 "I " "-" "-" 99.9999955687937 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 20 "Control strain plate" "Sample" "USDA" ""
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "logistic 4-par." 0.094586809109001 0.426236311576192 2.76070291990178 0.129985488302977 2.46359052165418 "I " "-" "-" 99.9999999852491 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 21 "Control strain plate" "Sample" "USDA" ""
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.121127547834438 0.686895206195343 3.14369238195928 0.106168321707794 2.89947354509400 "I " "-" "-" 99.999999980129 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 22 "Control strain plate" "Sample" "USDA" ""
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.129882547639779 1.04404130073079 2.93412602521094 0.121702902135689 2.75950289629821 "I " "-" "-" 99.9999893737237 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 23 "Control strain plate" "Sample" "USDA" ""
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.120898411706254 1.33105577737345 2.72267556496827 0.12655592121228 2.86661364644022 "I " "-" "-" 99.9926319946813 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 24 "Control strain plate" "Sample" "USDA" ""
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 27 "Control strain plate" "Sample" "Internal source" ""
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.0493379997843534 0.258082503402126 0.626040233021415 0.0848036154923235 1.54716159908115 "I " "-" "-" 99.9999968252864 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 28 "Control strain plate" "Sample" "Internal source" ""
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.093193485656018 0.411823417276531 1.71814140307729 0.091409977040732 2.39970752160387 "I " "-" "-" 99.9999999910198 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 29 "Control strain plate" "Sample" "Internal source" ""
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.124582742622812 0.665080891230421 2.16563432426164 0.091100407355597 3.20379613427983 "I " "-" "-" 99.9999999995818 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 30 "Control strain plate" "Sample" "Internal source" ""
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.127931246989736 0.990156801382824 2.06117153412082 0.0876398778418972 2.98526874471877 "I " "L" "-" 99.9999999793615 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 31 "Control strain plate" "Sample" "Internal source" ""
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.115525592287136 1.30147912807139 1.85809576888812 0.0813644729068572 2.81287527921881 "I " "L" "-" 99.9999137792424 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 32 "Control strain plate" "Sample" "Internal source" ""
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 35 "Control strain plate" "Sample" "ATCC" ""
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0459359326345167 0.251845669441832 0.66329309803162 0.0603517553820379 1.37098828428178 "I " "-" "-" 99.9999879447413 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 36 "Control strain plate" "Sample" "ATCC" ""
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "richards 5-par." 0.094434689949163 0.470902886035373 1.8826288625178 0.0639276535310338 2.23793506472592 "I " "-" "-" 99.9999948852344 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 37 "Control strain plate" "Sample" "ATCC" ""
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.121520619472619 0.710378798342107 2.08888813058284 0.0796495197823908 2.69846627998211 "I " "-" "-" 99.9999978953908 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 38 "Control strain plate" "Sample" "ATCC" ""
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.128733154739806 0.984997029200378 2.03997971060550 0.0873954601678824 2.90166520842456 "I " "-" "-" 99.9999884375137 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 39 "Control strain plate" "Sample" "ATCC" ""
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.122721598738299 1.31537998678672 2.01398893630359 0.0697748020039699 3.02277302646044 "I " "L" "-" 99.9995991051657 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 40 "Control strain plate" "Sample" "ATCC" ""
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.0831016695295036 1.26198322710616 9.6341119668272 -0.0159936185251119 2.21763366074044 "E*" "L" "-" 97.6895368192497 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0913331265905349 0.97967934369959 3.89989293822063 0.0565463143969478 3.41803212615394 "I " "-" "-" 99.996754328781 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 51 "Control strain plate" "Sample" "USDA" ""
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0901758841312911 1.02553230430999 3.91431464072772 0.054347185302541 3.35821455308180 "I " "-" "-" 99.9933058334686 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 52 "Control strain plate" "Sample" "USDA" ""
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.087653449479707 1.05312597876003 4.23604747636681 0.0485047709394144 3.43101493489101 "I " "-" "-" 99.9881620605088 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 53 "Control strain plate" "Sample" "USDA" ""
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.0852505865256928 1.09709212221813 4.4160839430485 0.0528193717230026 3.32240181027237 "I " "-" "-" 99.9643803748374 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 54 "Control strain plate" "Sample" "USDA" ""
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.0834062493600675 1.16328851193977 4.33330336969409 0.0489104172866142 3.24662867008000 "I " "-" "-" 99.8772630755024 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 55 "Control strain plate" "Sample" "USDA" ""
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0746869172685951 1.29976805435626 4.42703571454512 0.0546121442553045 3.36340266867229 "I " "-" "-" 98.4368902568205 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 56 "Control strain plate" "Sample" "USDA" ""
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.114235639362830 1.11928465325468 2.95662866422492 0.102774172923920 3.07479264063237 "I " "-" "-" 99.9998423354262 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 59 "Control strain plate" "Sample" "USDA" ""
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.114214452831191 1.14837906885588 3.19068068041329 0.0872651968628158 3.13967373959083 "I " "-" "-" 99.9996783933085 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 60 "Control strain plate" "Sample" "USDA" ""
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.113566098483318 1.18251324712617 3.15261697058665 0.0824132232798602 3.20643947548216 "I " "-" "-" 99.9993817260453 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 61 "Control strain plate" "Sample" "USDA" ""
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.112827039600267 1.23375586100143 3.12591278868747 0.0877996040474751 3.18956938304341 "I " "-" "-" 99.9983920897484 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 62 "Control strain plate" "Sample" "USDA" ""
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.110948155806134 1.28676660547704 3.25021471205597 0.0827447676928017 3.20897314216787 "I " "-" "-" 99.9946050160346 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 63 "Control strain plate" "Sample" "USDA" ""
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104909957772007 1.38120323294419 3.5400282340856 0.0841025860310471 3.54895808838236 "I " "-" "-" 99.9341701264792 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 64 "Control strain plate" "Sample" "USDA" ""
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.124619613670634 1.02546123083454 2.57717331265474 0.0790971076805143 3.19828565863910 "I " "-" "-" 99.9999985057572 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 67 "Control strain plate" "Sample" "Internal source" ""
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.123242472307703 1.0763049093573 2.58579779724471 0.0704104383586222 3.30084510513736 "I " "-" "-" 99.9999944424538 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 68 "Control strain plate" "Sample" "Internal source" ""
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.120900871587230 1.10591407490241 2.49685751569192 0.0672398191226693 3.29576923039635 "I " "L" "-" 99.999989671537 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 69 "Control strain plate" "Sample" "Internal source" ""
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.119451758787832 1.16449508809393 2.44557526327415 0.0665918895911914 3.20509498580801 "I " "L" "-" 99.9999601611542 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 70 "Control strain plate" "Sample" "Internal source" ""
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.117046850703108 1.23459712335416 2.58701197446896 0.0611670849509847 3.14018976860492 "I " "L" "-" 99.9995704795227 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 71 "Control strain plate" "Sample" "Internal source" ""
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.108331393797411 1.34306781528512 2.65978833216588 0.0615660939241569 3.23212721890241 "I " "-" "-" 99.9822923993972 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 72 "Control strain plate" "Sample" "Internal source" ""
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.121839335770884 1.03411101157879 2.35496298854354 0.0684679645246347 2.99659166289529 "I " "-" "-" 99.9998739337277 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 75 "Control strain plate" "Sample" "ATCC" ""
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.123130424753602 1.06718487562610 2.62328252943635 0.0533919287920788 3.19928587493597 "I " "-" "-" 99.9998922931215 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 76 "Control strain plate" "Sample" "ATCC" ""
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.120973126016907 1.08894424184742 2.61938690806177 0.0531493464712776 3.33630531768578 "I " "-" "-" 99.9998818237851 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 77 "Control strain plate" "Sample" "ATCC" ""
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.120740948707418 1.1559165803317 2.69619009025558 0.048980878983772 3.36496106313806 "I " "-" "-" 99.9996105268543 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 78 "Control strain plate" "Sample" "ATCC" ""
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.121802166262885 1.22916108660807 2.69540468852973 0.0531433213499186 3.47334970863371 "I " "-" "-" 99.99890373284 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 79 "Control strain plate" "Sample" "ATCC" ""
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.112904136028813 1.34343484031260 2.71645828999368 0.0555677209128236 3.53967163281668 "I " "-" "-" 99.9786856044998 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 80 "Control strain plate" "Sample" "ATCC" ""
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.0972515006011796 1.24805373798836 14.8532035505196 -0.00367359356392649 2.38008868734198 "E*" "L/U" "-" 87.1867820927035 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.11.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:46:11
# completed: 2013-11-26 11:46:20
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 0.05
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT2/Points_Ignored.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "logistic 4-par." 0.00512322284611084 0.0885706705171092 0.00146885083119497 0.109882390197245 2.6703814889978 "I " "-" "-" 92.8305994745802 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 11 "Control strain plate" "Sample" "USDA" ""
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.0459063906963165 0.241063286623944 2.41105819151703 0.0760544501191693 2.33445949677366 "I " "-" "-" 99.9998616892386 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 12 "Control strain plate" "Sample" "USDA" ""
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0729653521516789 0.434572158524765 3.10530782875816 0.0912110779424646 2.66378208529322 "I " "-" "-" 99.99999403812 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 13 "Control strain plate" "Sample" "USDA" ""
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.087549003744991 0.680384078190256 3.41500410591867 0.078602369429122 3.04253253857771 "I " "-" "-" 99.999783493135 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 14 "Control strain plate" "Sample" "USDA" ""
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "logistic 4-par." 0.0835036622875622 0.849207863293472 2.94083431769237 0.0735497372002751 2.71606517889471 "I " "-" "-" 99.9920437081347 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 15 "Control strain plate" "Sample" "USDA" ""
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0605784733145486 1.11352517731425 1.48539390611669 0.0496177952902848 1.88568659491702 "I " "L" "-" 98.9719626898602 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 16 "Control strain plate" "Sample" "USDA" ""
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 19 "Control strain plate" "Sample" "USDA" ""
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0457475800711658 0.256904287297204 1.72691879921013 0.110606719040152 1.77859625443674 "I " "-" "-" 99.9999947777523 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 20 "Control strain plate" "Sample" "USDA" ""
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "logistic 4-par." 0.0944654373655411 0.426655260550642 2.75828968419929 0.129917552736420 2.52869451465839 "I " "-" "-" 99.999999984456 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 21 "Control strain plate" "Sample" "USDA" ""
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.121095965736346 0.687037999671402 3.14313398289071 0.106191053770912 2.95478381597453 "I " "-" "-" 99.999999979389 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 22 "Control strain plate" "Sample" "USDA" ""
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.129855086205514 1.04449449227513 2.93366816024193 0.121714484234362 2.81436465576683 "I " "-" "-" 99.9999891316078 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 23 "Control strain plate" "Sample" "USDA" ""
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.120898435937539 1.32764962491579 2.72323240077344 0.127905341227191 3.00797833267527 "I " "-" "-" 99.9912733187558 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 24 "Control strain plate" "Sample" "USDA" ""
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 27 "Control strain plate" "Sample" "Internal source" ""
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.049113938942915 0.258748737037695 0.611171874481659 0.0845578831007956 1.61316239160049 "I " "-" "-" 99.9999962105762 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 28 "Control strain plate" "Sample" "Internal source" ""
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.093074527600122 0.412178246785743 1.71538098733957 0.0913303370508307 2.46532958224324 "I " "-" "-" 99.9999999905309 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 29 "Control strain plate" "Sample" "Internal source" ""
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.124584782390426 0.665071528928034 2.16566832060573 0.09109869026466 3.26118827375832 "I " "-" "-" 99.9999999995832 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 30 "Control strain plate" "Sample" "Internal source" ""
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.127927076462060 0.990201196030809 2.06107722840498 0.087648083744547 3.04010612494743 "I " "L" "-" 99.9999999791478 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 31 "Control strain plate" "Sample" "Internal source" ""
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.115598093951232 1.30017594724392 1.86057928629408 0.0816316115810476 2.87659439741231 "I " "L" "-" 99.9999089635063 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 32 "Control strain plate" "Sample" "Internal source" ""
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 35 "Control strain plate" "Sample" "ATCC" ""
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0455423852277455 0.253011492887766 0.633612783422165 0.0599180880707215 1.44199308592877 "I " "-" "-" 99.9999836645589 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 36 "Control strain plate" "Sample" "ATCC" ""
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "richards 5-par." 0.0942560771156105 0.47165366043215 1.87947890043788 0.0641152719303668 2.32215880898724 "I " "-" "-" 99.9999936292908 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 37 "Control strain plate" "Sample" "ATCC" ""
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.121404566371326 0.711085043803959 2.08707581462709 0.079800634332521 2.77857179654498 "I " "-" "-" 99.9999975813868 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 38 "Control strain plate" "Sample" "ATCC" ""
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.128659484339870 0.98597671409577 2.03868589008582 0.087495143007229 2.98217250669466 "I " "-" "-" 99.9999873691302 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 39 "Control strain plate" "Sample" "ATCC" ""
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.122711103907082 1.31562500185075 2.01371509312624 0.0697603778582843 3.07643306357741 "I " "L" "-" 99.999598061796 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 40 "Control strain plate" "Sample" "ATCC" ""
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.0857882390552096 1.24493866823306 9.88179192729724 -0.0165597461168613 2.32606464578444 "E*" "L" "-" 98.4210828771573 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0910656809877224 0.978831696720056 3.88851123944356 0.057119562600749 3.50838381966352 "I " "-" "-" 99.9960539072354 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 51 "Control strain plate" "Sample" "USDA" ""
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0897750856169793 1.02459532986805 3.89679290870610 0.0551818328016911 3.46998372922229 "I " "-" "-" 99.991259133915 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 52 "Control strain plate" "Sample" "USDA" ""
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.087292525747305 1.05275013304220 4.21907836932876 0.0490476413563776 3.51721701779359 "I " "-" "-" 99.9856386878846 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 53 "Control strain plate" "Sample" "USDA" ""
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.0854275766875656 1.09681106370395 4.42403082220079 0.0527978561023557 3.39981186901509 "I " "-" "-" 99.9660125813752 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 54 "Control strain plate" "Sample" "USDA" ""
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.084278824827003 1.16188034043041 4.37444626455929 0.0484042275684464 3.40906624822256 "I " "-" "-" 99.903924927466 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 55 "Control strain plate" "Sample" "USDA" ""
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0751490389653923 1.29671192755065 4.45016704465737 0.0546480394626687 3.48603212189912 "I " "-" "-" 98.5357819689647 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 56 "Control strain plate" "Sample" "USDA" ""
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.114233577227138 1.11940666165336 2.95659685349929 0.102760700959780 3.12523138568832 "I " "-" "-" 99.9998425058726 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 59 "Control strain plate" "Sample" "USDA" ""
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.114190896575847 1.14811138681943 3.18991017237117 0.0873694909800864 3.19174147527227 "I " "-" "-" 99.9996684768339 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 60 "Control strain plate" "Sample" "USDA" ""
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.113518812542466 1.18182740070708 3.15106253292283 0.0826636113465304 3.26600840866822 "I " "-" "-" 99.9993405132836 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 61 "Control strain plate" "Sample" "USDA" ""
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.112731557723291 1.23243667600584 3.12290823666719 0.0883532618105942 3.27099839140732 "I " "-" "-" 99.998177929312 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 62 "Control strain plate" "Sample" "USDA" ""
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.110711220465384 1.28465314801447 3.24291094200068 0.0838703449391198 3.34935047015509 "I " "-" "-" 99.9932361128704 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 63 "Control strain plate" "Sample" "USDA" ""
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104911901010651 1.38112995826321 3.54007980934916 0.0841275019173986 3.60183900056643 "I " "-" "-" 99.9340428851054 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 64 "Control strain plate" "Sample" "USDA" ""
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.124639558557251 1.02518255796904 2.57760580712995 0.0790861200979034 3.25359624987887 "I " "-" "-" 99.9999985380202 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 67 "Control strain plate" "Sample" "Internal source" ""
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.123259617514217 1.07597966901492 2.58617748296761 0.0704118282374251 3.35647651673620 "I " "-" "-" 99.999994522924 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 68 "Control strain plate" "Sample" "Internal source" ""
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.120921387314129 1.10541418860150 2.49733136040803 0.0672610858991924 3.35561723828862 "I " "L" "-" 99.999989789286 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 69 "Control strain plate" "Sample" "Internal source" ""
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.119469215205307 1.16386920095508 2.44599900455348 0.0666632835088954 3.26495706766016 "I " "L" "-" 99.9999598857272 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 70 "Control strain plate" "Sample" "Internal source" ""
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.117055956532607 1.23292877894923 2.58733736534061 0.0615930499531776 3.23191783299634 "I " "-" "-" 99.9995312927806 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 71 "Control strain plate" "Sample" "Internal source" ""
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.108245104945905 1.34096953377871 2.65843365395388 0.062727700859311 3.38843037787812 "I " "-" "-" 99.9788375045276 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 72 "Control strain plate" "Sample" "Internal source" ""
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.121764774087552 1.03575182594995 2.35350455581128 0.0683841865814427 3.10711688897198 "I " "-" "-" 99.9998704011685 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 75 "Control strain plate" "Sample" "ATCC" ""
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.123090824730516 1.06842524515535 2.62256716415931 0.0532958289475007 3.29457027142756 "I " "-" "-" 99.9998916790283 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 76 "Control strain plate" "Sample" "ATCC" ""
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.120944684388312 1.09008552670784 2.61886063345403 0.0530365880953372 3.43451356445556 "I " "-" "-" 99.9998823965125 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 77 "Control strain plate" "Sample" "ATCC" ""
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.120734107580927 1.15670253081866 2.69611302714549 0.0488445587231696 3.43432940804069 "I " "-" "-" 99.999618979496 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 78 "Control strain plate" "Sample" "ATCC" ""
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.121797460706957 1.22927410593987 2.69529695023975 0.0531367705332191 3.52592526978957 "I " "-" "-" 99.998902414812 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 79 "Control strain plate" "Sample" "ATCC" ""
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.112849428100400 1.34218005582050 2.71555080399082 0.0562414213905349 3.66293619120109 "I " "-" "-" 99.9765721559617 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 80 "Control strain plate" "Sample" "ATCC" ""
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.0955422988477089 1.27434659362621 14.7977758044825 -0.00282569557385737 2.58074649545863 "E*" "L/U" "-" 85.8739348760869 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.47.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 12:08:47
# completed: 2013-11-26 12:08:57
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 0.05
# - Removed points: 70 71 72 73 74 75 76 77 78 79
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT3/Growth_Threshold.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 11 "Control strain plate" "Sample" "USDA" ""
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 12 "Control strain plate" "Sample" "USDA" ""
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 13 "Control strain plate" "Sample" "USDA" ""
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 14 "Control strain plate" "Sample" "USDA" ""
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 15 "Control strain plate" "Sample" "USDA" ""
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 16 "Control strain plate" "Sample" "USDA" ""
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 19 "Control strain plate" "Sample" "USDA" ""
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 20 "Control strain plate" "Sample" "USDA" ""
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 21 "Control strain plate" "Sample" "USDA" ""
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 22 "Control strain plate" "Sample" "USDA" ""
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 23 "Control strain plate" "Sample" "USDA" ""
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 24 "Control strain plate" "Sample" "USDA" ""
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 27 "Control strain plate" "Sample" "Internal source" ""
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 28 "Control strain plate" "Sample" "Internal source" ""
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 29 "Control strain plate" "Sample" "Internal source" ""
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 30 "Control strain plate" "Sample" "Internal source" ""
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 31 "Control strain plate" "Sample" "Internal source" ""
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 32 "Control strain plate" "Sample" "Internal source" ""
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 35 "Control strain plate" "Sample" "ATCC" ""
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 36 "Control strain plate" "Sample" "ATCC" ""
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 37 "Control strain plate" "Sample" "ATCC" ""
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 38 "Control strain plate" "Sample" "ATCC" ""
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 39 "Control strain plate" "Sample" "ATCC" ""
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 40 "Control strain plate" "Sample" "ATCC" ""
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 51 "Control strain plate" "Sample" "USDA" ""
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 52 "Control strain plate" "Sample" "USDA" ""
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 53 "Control strain plate" "Sample" "USDA" ""
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 54 "Control strain plate" "Sample" "USDA" ""
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 55 "Control strain plate" "Sample" "USDA" ""
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 56 "Control strain plate" "Sample" "USDA" ""
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 59 "Control strain plate" "Sample" "USDA" ""
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 60 "Control strain plate" "Sample" "USDA" ""
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 61 "Control strain plate" "Sample" "USDA" ""
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 62 "Control strain plate" "Sample" "USDA" ""
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 63 "Control strain plate" "Sample" "USDA" ""
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104909957772007 1.38120323294419 3.5400282340856 0.0841025860310471 3.54895808838236 "I " "-" "-" 99.9341701264792 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 64 "Control strain plate" "Sample" "USDA" ""
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 67 "Control strain plate" "Sample" "Internal source" ""
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 68 "Control strain plate" "Sample" "Internal source" ""
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 69 "Control strain plate" "Sample" "Internal source" ""
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 70 "Control strain plate" "Sample" "Internal source" ""
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 71 "Control strain plate" "Sample" "Internal source" ""
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 72 "Control strain plate" "Sample" "Internal source" ""
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 75 "Control strain plate" "Sample" "ATCC" ""
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 76 "Control strain plate" "Sample" "ATCC" ""
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 77 "Control strain plate" "Sample" "ATCC" ""
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 78 "Control strain plate" "Sample" "ATCC" ""
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 79 "Control strain plate" "Sample" "ATCC" ""
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "<NA>: skipped" NA NA NA NA NA "! " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 80 "Control strain plate" "Sample" "ATCC" ""
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.58.22.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:58:22
# completed: 2013-11-26 11:58:30
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 1.37
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT3/Inoculation.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source" "Media.Definition"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty" "None"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty" "None"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty" "None"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty" "None"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty" "None"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty" "None"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty" "None"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty" "None"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty" "None"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "logistic 4-par." 0.00513390947239015 0.0876620001483475 0.000551696237099386 0.110874812224549 2.59465563414583 "I " "-" "-" 92.6741690962163 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 11 "Control strain plate" "Sample" "USDA" "" "YP"
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.0460029361983442 0.240392472194083 2.23932295697808 0.0761318166887226 2.23914120606195 "I " "-" "-" 99.9998792920065 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 12 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0731423187209926 0.432756582200227 2.94212753267929 0.0918532887250707 2.536051033281 "I " "-" "-" 99.9999952623947 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 13 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.0874988417362888 0.677479207265783 3.24633816769258 0.0800120483977169 2.87924387138478 "I " "-" "-" 99.9997657328472 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 14 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "logistic 4-par." 0.0833321479006846 0.847046661111158 2.77452557039409 0.0752193280284603 2.65845234206059 "I " "-" "-" 99.9918661852256 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 15 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0589669239899499 1.11882517761774 1.20640826390575 0.0520133170774622 1.79342170973749 "I " "L" "-" 98.6708254147882 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 16 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty" "None"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty" "None"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 19 "Control strain plate" "Sample" "USDA" "" "YP"
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0459986845139891 0.254831348162179 1.58986879723202 0.112101681081809 1.70864325519431 "I " "-" "-" 99.9999955467498 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 20 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "logistic 4-par." 0.0945868089752667 0.425786653122546 2.58713136878942 0.130435146775932 2.46359052165421 "I " "-" "-" 99.9999999852335 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 21 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.121127547817384 0.685559786610674 2.97587534293576 0.1075037413168 2.89947354509395 "I " "-" "-" 99.9999999800904 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 22 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.129882547594034 1.04160860310247 2.77302797649945 0.124135599690527 2.75950289629815 "I " "-" "-" 99.9999893489067 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 23 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.120898412251709 1.32901254481953 2.55988604768709 0.128599154705507 2.86661364643987 "I " "-" "-" 99.9926206656861 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 24 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty" "None"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty" "None"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 27 "Control strain plate" "Sample" "Internal source" "" "YP"
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.0493379998716343 0.254045397275896 0.523551303454949 0.0888407216209763 1.54716159908116 "I " "-" "-" 99.999996774836 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 28 "Control strain plate" "Sample" "Internal source" "" "YP+0.25% glucose"
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.0931934856727062 0.410238463163683 1.5559350402868 0.0929949311576475 2.39970752160387 "I " "-" "-" 99.9999999909852 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 29 "Control strain plate" "Sample" "Internal source" "" "YP+0.5% glucose"
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.124582742678508 0.661996390783556 2.01051598351255 0.0941849078026622 3.20379613427986 "I " "-" "-" 99.9999999995799 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 30 "Control strain plate" "Sample" "Internal source" "" "YP+1% glucose"
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.127931259194577 0.983986521455829 1.92761351717956 0.0938101603743178 2.98526874472308 "I " "L" "-" 99.9999999792319 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 31 "Control strain plate" "Sample" "Internal source" "" "YP+2% glucose"
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.115525592792629 1.29381927826542 1.74141731218751 0.0890243231205414 2.81287527921917 "I " "L" "-" 99.9999132687566 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 32 "Control strain plate" "Sample" "Internal source" "" "YP+5% glucose"
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty" "None"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty" "None"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 35 "Control strain plate" "Sample" "ATCC" "" "YP"
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0459359326623486 0.248154224199646 0.561170567204033 0.0640432006076648 1.37098828428177 "I " "-" "-" 99.999987765412 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 36 "Control strain plate" "Sample" "ATCC" "" "YP+0.25% glucose"
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "richards 5-par." 0.0944346858619649 0.470200890606434 1.71183574726233 0.0646296482425968 2.23793506472523 "I " "-" "-" 99.9999948776095 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 37 "Control strain plate" "Sample" "ATCC" "" "YP+0.5% glucose"
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.121520620892205 0.708619340533668 1.9245099862059 0.0814089778419187 2.69846627998123 "I " "-" "-" 99.999997890164 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 38 "Control strain plate" "Sample" "ATCC" "" "YP+1% glucose"
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.128733155060522 0.981131957422723 1.8897638207079 0.0912605323267595 2.90166520842437 "I " "-" "-" 99.9999883919601 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 39 "Control strain plate" "Sample" "ATCC" "" "YP+2% glucose"
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.122721595892799 1.3094112138332 1.8815491534903 0.0757435729961564 3.02277302645685 "I " "L" "-" 99.9995972781622 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 40 "Control strain plate" "Sample" "ATCC" "" "YP+5% glucose"
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty" "None"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty" "None"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty" "None"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.0831016694707274 1.26159681822536 9.46105867276385 -0.0156072095149274 2.2176336607405 "E*" "L" "-" 97.6888291753059 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty" "None"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty" "None"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0913331265842828 0.977676293223671 3.74285300700227 0.0585493648561697 3.41803212615394 "I " "-" "-" 99.9967476790949 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 51 "Control strain plate" "Sample" "USDA" "" "AFEX"
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0901758840515798 1.02343733695468 3.7585494976221 0.0564421526774237 3.35821455308179 "I " "-" "-" 99.9932921305762 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 52 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.0876534489375277 1.05107784214595 4.08053328986319 0.0505529065684702 3.43101493489121 "I " "-" "-" 99.9881389964051 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 53 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.0852505870016418 1.09523234209277 4.2590088920043 0.0546791531091333 3.3224018102746 "I " "-" "-" 99.9643198816725 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 54 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.0834062493896505 1.16156601844817 4.17519830688 0.0506329107469832 3.24662867008 "I " "-" "-" 99.8770810687182 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 55 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0746869173042796 1.29883332508854 4.26111988760969 0.0555468732725124 3.36340266867229 "I " "-" "-" 98.4357653421947 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 56 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty" "None"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty" "None"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.114235639585196 1.11603265279451 2.80462732513778 0.106026173457393 3.07479264063223 "I " "-" "-" 99.9998418759963 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 59 "Control strain plate" "Sample" "USDA" "" "AFEX"
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.114214452912468 1.14545395160069 3.03642647181899 0.0901903141548646 3.13967373959077 "I " "-" "-" 99.9996775720213 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 60 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.11356609836573 1.17951259888145 2.99921572692866 0.0854138714541255 3.20643947548211 "I " "-" "-" 99.9993801531958 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 61 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.112827039764747 1.23081376697016 2.97207411510676 0.090741698149845 3.1895693830433 "I " "-" "-" 99.9983882461922 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 62 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.110948156058339 1.28413133026796 3.09434741751019 0.0853800430755536 3.20897314216817 "I " "-" "-" 99.9945939442068 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 63 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104909957747906 1.37957293880569 3.37657406597065 0.0857328798243138 3.54895808838256 "I " "-" "-" 99.9340923347588 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 64 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty" "None"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty" "None"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.12461961390891 1.02126553518662 2.4305352177311 0.0832928033695586 3.19828565863893 "I " "-" "-" 99.9999984996182 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 67 "Control strain plate" "Sample" "Internal source" "" "AFEX"
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.123242474045102 1.07196388949718 2.44085995606895 0.0747514589944707 3.30084510513645 "I " "-" "-" 99.9999944199419 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 68 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.25% glucose"
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.12090087889886 1.10115777984898 2.35585985916424 0.0719961174673402 3.29576923040073 "I " "L" "-" 99.9999896268808 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 69 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.5% glucose"
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.119451757970973 1.15953479542773 2.3066400904183 0.0715521817197322 3.20509498580791 "I " "L" "-" 99.9999599907486 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 70 "Control strain plate" "Sample" "Internal source" "" "AFEX+1% glucose"
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.117046866658425 1.23026145665052 2.44407044557878 0.0655027600473694 3.14018976861125 "I " "L" "-" 99.9995689634333 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 71 "Control strain plate" "Sample" "Internal source" "" "AFEX+2% glucose"
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.108331393150974 1.33973156155552 2.51097570573708 0.0649023468973968 3.23212721890241 "I " "-" "-" 99.9822483056319 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 72 "Control strain plate" "Sample" "Internal source" "" "AFEX+5% glucose"
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty" "None"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty" "None"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.121839335523261 1.03094115561518 2.20149868335828 0.0716378203446439 2.99659166289555 "I " "-" "-" 99.9998735461218 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 75 "Control strain plate" "Sample" "ATCC" "" "AFEX"
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.123130425236 1.06412474728157 2.46906361902119 0.0564520573406488 3.19928587493649 "I " "-" "-" 99.999891983369 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 76 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.25% glucose"
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.120973125758535 1.08554405396271 2.46825462758035 0.056549534178326 3.33630531768612 "I " "-" "-" 99.9998814536437 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 77 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.5% glucose"
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.120740949535359 1.15263316370924 2.5442959513883 0.0522642960780029 3.36496106313701 "I " "-" "-" 99.9996094172831 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 78 "Control strain plate" "Sample" "ATCC" "" "AFEX+1% glucose"
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.121802165325221 1.22599703168728 2.5422560684683 0.056307375634215 3.47334970863554 "I " "-" "-" 99.9989009038885 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 79 "Control strain plate" "Sample" "ATCC" "" "AFEX+2% glucose"
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.11290413623126 1.340836387636 2.56045685725438 0.0581661740243069 3.53967163281617 "I " "-" "-" 99.9786442972454 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 80 "Control strain plate" "Sample" "ATCC" "" "AFEX+5% glucose"
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty" "None"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty" "None"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty" "None"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty" "None"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty" "None"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty" "None"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.097251500241612 1.24804582503984 14.6755074922153 -0.00366567404981055 2.38008868734244 "E*" "L/U" "-" 87.1867004610056 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty" "None"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty" "None"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty" "None"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty" "None"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty" "None"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty" "None"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty" "None"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty" "None"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty" "None"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty" "None"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.54.31.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty" "None"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:54:31
# completed: 2013-11-26 11:54:41
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 3
# - Minimum growth threshold: 0.05
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT3/Media_Background1.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source" "Media.Definition"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty" "None"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty" "None"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty" "None"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty" "None"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty" "None"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty" "None"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty" "None"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty" "None"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty" "None"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 11 "Control strain plate" "Sample" "USDA" "" "YP"
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.0434503343000251 0.25355485467526 2.02165330333884 0.0617033863833638 1.64185698237008 "I " "-" "-" 99.9999736403217 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 12 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0710461374870435 0.446283240058387 2.88921431893203 0.078039465273223 1.94354072341034 "I " "-" "-" 99.9999992879621 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 13 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.0860880819729473 0.688375845522998 3.26587795985316 0.0682375379828597 2.36976256861628 "I " "-" "-" 99.9998854906447 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 14 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "richards 5-par." 0.0855558286818253 0.848516659814659 2.99428931741607 0.0785443237303707 2.50265696873442 "I " "-" "-" 99.9675537192086 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 15 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0590319877346773 1.1313189331006 1.21092069814356 0.0412045752566177 1.7937439452957 "I " "L" "-" 98.6047219117497 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 16 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty" "None"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty" "None"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 19 "Control strain plate" "Sample" "USDA" "" "YP"
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0434892612564025 0.274547126811452 1.17986305219729 0.0930562431741175 1.2462515507653 "I " "-" "-" 99.9999459725148 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 20 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "richards 5-par." 0.0897339782050535 0.44725588012243 2.48510022383136 0.111954813319619 1.64728332860566 "I " "-" "-" 99.9999999997907 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 21 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.118704818394586 0.701739899244777 3.00105743862396 0.0902498862365915 2.16060651373925 "I " "-" "-" 99.9999999982431 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 22 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.127118789469248 1.06188644325538 2.76198673024551 0.101832988995193 2.2489695413201 "I " "-" "-" 99.9999974728383 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 23 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.118124578641559 1.3496375733804 2.51164992830229 0.105412244128214 2.36610848171534 "I " "-" "-" 99.9956836427274 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 24 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty" "None"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty" "None"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 27 "Control strain plate" "Sample" "Internal source" "" "YP"
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.0503915103890343 0.278431850863241 0.230735178823221 0.0667245999493249 1.28125167205809 "I " "-" "-" 99.9999557835925 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 28 "Control strain plate" "Sample" "Internal source" "" "YP+0.25% glucose"
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.0900596817770063 0.426283124892579 1.48660897985453 0.0787853427815937 1.78609838401984 "I " "-" "-" 99.9999999465272 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 29 "Control strain plate" "Sample" "Internal source" "" "YP+0.5% glucose"
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.120932696502068 0.681827053465979 1.98743887548203 0.0750931197769025 2.24806197934911 "I " "-" "-" 99.9999999999806 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 30 "Control strain plate" "Sample" "Internal source" "" "YP+1% glucose"
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.124851864857507 1.00554516052416 1.8909730823156 0.0745327038147034 2.45714183902256 "I " "L" "-" 99.9999999978197 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 31 "Control strain plate" "Sample" "Internal source" "" "YP+2% glucose"
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.113079038402523 1.31499248437073 1.6706153298796 0.0682108949608626 2.54109072078653 "I " "L" "-" 99.9999648186165 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 32 "Control strain plate" "Sample" "Internal source" "" "YP+5% glucose"
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty" "None"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty" "None"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 35 "Control strain plate" "Sample" "ATCC" "" "YP"
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0460541020662134 0.26524158772085 0.357238281642297 0.0484389000123124 1.28333178169019 "I " "L" "-" 99.9999287079269 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 36 "Control strain plate" "Sample" "ATCC" "" "YP+0.25% glucose"
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "logistic 4-par." 0.0910355508572168 0.484885690164407 1.68228977771903 0.0503454179292044 2.01406534894519 "I " "-" "-" 99.999999075587 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 37 "Control strain plate" "Sample" "ATCC" "" "YP+0.5% glucose"
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.1185326268352 0.724942396645568 1.93091588614506 0.0650485245853678 2.28064777433602 "I " "-" "-" 99.9999994051425 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 38 "Control strain plate" "Sample" "ATCC" "" "YP+1% glucose"
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.125935099476691 1.00060394314497 1.87185854411294 0.0705328954848026 2.43919113300695 "I " "-" "-" 99.9999960758469 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 39 "Control strain plate" "Sample" "ATCC" "" "YP+2% glucose"
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.12045828658039 1.32681554802285 1.87312970608357 0.0617649897724031 2.72077052437644 "I " "L" "-" 99.9997697224565 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 40 "Control strain plate" "Sample" "ATCC" "" "YP+5% glucose"
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty" "None"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty" "None"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty" "None"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.083026880473868 1.26274912739788 9.6370199491002 -0.0148648394970353 2.22003323483864 "E*" "L" "-" 97.6179798356663 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty" "None"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty" "None"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0837862465621809 0.985589476660035 3.87077447326577 0.172902084515593 2.936554895572 "I " "-" "-" 99.9976660845596 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 51 "Control strain plate" "Sample" "USDA" "" "AFEX"
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0825725388111153 1.03111358478328 3.8935977613249 0.175746057355985 2.95818389639001 "I " "-" "-" 99.9950047689826 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 52 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.0803990851774492 1.05769131646876 4.23452367239061 0.171669910262409 3.05762797860851 "I " "-" "-" 99.9905797580664 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 53 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.078260986900903 1.10176517760371 4.41033894653477 0.174661705124986 2.98245532148831 "I " "-" "-" 99.97078656119 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 54 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.0765359669045422 1.16743187678685 4.33134033283011 0.171774058333315 2.99101843653394 "I " "-" "-" 99.8931141945986 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 55 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0684295063358446 1.30296627125276 4.41039755952004 0.177550778776163 3.02126707953049 "I " "-" "-" 98.5429258482389 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 56 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty" "None"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty" "None"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.103961511845496 1.13335005494973 2.84746894877643 0.216147675837119 2.50607784281402 "I " "-" "-" 99.999934749514 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 59 "Control strain plate" "Sample" "USDA" "" "AFEX"
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.104426132027787 1.15952947440466 3.1179146181553 0.202220291175903 2.64629880567713 "I " "-" "-" 99.9998358609235 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 60 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.103564913027715 1.19303695629607 3.08800865283045 0.203591721344972 2.71477777367162 "I " "-" "-" 99.9996508953345 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 61 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.103109984243399 1.24497138884473 3.04906663958604 0.203623320796393 2.68869096385621 "I " "-" "-" 99.9990405446907 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 62 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.101328068865228 1.29683436370675 3.18655040766587 0.203111588999557 2.75266670603191 "I " "-" "-" 99.996339173896 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 63 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.0960414766942334 1.39007056093517 3.47869089975363 0.202353552916657 2.86594136189225 "I " "-" "-" 99.9467189237796 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 64 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty" "None"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty" "None"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.113180265724915 1.03747916133359 2.49766338810221 0.198495309639666 2.6483170296715 "I " "-" "-" 99.99999950571 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 67 "Control strain plate" "Sample" "Internal source" "" "AFEX"
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.112532945731761 1.08681009274574 2.52119628407453 0.186329225710496 2.77398299574405 "I " "-" "-" 99.9999976342956 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 68 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.25% glucose"
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.110237121553375 1.11602705298285 2.43678055941639 0.18724754693763 2.81184006554946 "I " "-" "-" 99.9999952725547 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 69 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.5% glucose"
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.109153261238411 1.17453886329702 2.38442334222443 0.183907793076526 2.80879291485336 "I " "-" "-" 99.9999796529525 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 70 "Control strain plate" "Sample" "Internal source" "" "AFEX+1% glucose"
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.107153820876407 1.24345235940033 2.53842674779367 0.178885414386565 2.84792003349477 "I " "-" "-" 99.9997261996811 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 71 "Control strain plate" "Sample" "Internal source" "" "AFEX+2% glucose"
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.0990827158819113 1.35146254239763 2.60572114613308 0.180195185614621 2.91808898590255 "I " "-" "-" 99.9858735540263 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 72 "Control strain plate" "Sample" "Internal source" "" "AFEX+5% glucose"
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty" "None"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty" "None"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.110458083084921 1.04485579994439 2.27701838325376 0.188114595684521 2.65931477578895 "I " "-" "-" 99.9999271625885 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 75 "Control strain plate" "Sample" "ATCC" "" "AFEX"
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.112540220994811 1.07487901296182 2.58417196441953 0.171301212668114 2.88882458916344 "I " "-" "-" 99.9999309539298 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 76 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.25% glucose"
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.110640152738962 1.09653685419261 2.58231557868978 0.171664577469133 2.95663771710228 "I " "-" "-" 99.9999237076305 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 77 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.5% glucose"
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.1105967205646 1.16275661096821 2.66983121158 0.168291454109896 3.03987519406164 "I " "-" "-" 99.9997284198838 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 78 "Control strain plate" "Sample" "ATCC" "" "AFEX+1% glucose"
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.111561409951938 1.23655979175461 2.66322072814323 0.172114613842357 3.06755684662736 "I " "-" "-" 99.9991978972748 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 79 "Control strain plate" "Sample" "ATCC" "" "AFEX+2% glucose"
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.103366231210924 1.3509354915414 2.67448563817088 0.173610905690015 3.10078735926473 "I " "-" "-" 99.9823958592765 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 80 "Control strain plate" "Sample" "ATCC" "" "AFEX+5% glucose"
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty" "None"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty" "None"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty" "None"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty" "None"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty" "None"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty" "None"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.0898948262289814 1.25317410845682 14.918347724891 0.115247567652615 2.39076788045153 "E*" "U" "-" 86.9727718976639 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty" "None"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty" "None"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty" "None"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty" "None"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty" "None"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty" "None"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty" "None"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty" "None"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty" "None"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty" "None"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.41.59.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty" "None"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:41:59
# completed: 2013-11-26 11:42:10
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: 0.093
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 0.05
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT3/OD_Transform.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source" "Media.Definition"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty" "None"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty" "None"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty" "None"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty" "None"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty" "None"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty" "None"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty" "None"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty" "None"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty" "None"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "logistic 4-par." 0.0051339104025321 0.0886723328566521 0.0010960793606184 0.109864484860788 2.59465563414594 "I " "-" "-" 92.7576349468939 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 11 "Control strain plate" "Sample" "USDA" "" "YP"
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.046002940306046 0.240507240883085 2.41478235175163 0.0760170490729348 2.23914120606312 "I " "-" "-" 99.9998793491392 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 12 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0731423187284127 0.433505884635671 3.11051947470925 0.0911039861390441 2.53605103328146 "I " "-" "-" 99.9999952705852 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 13 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.0874988417043893 0.678577289035852 3.41249009999581 0.0789139664707765 2.87924387138496 "I " "-" "-" 99.9997661119774 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 14 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "logistic 4-par." 0.0833321480330421 0.84892275974252 2.93134654253266 0.073343229233773 2.65845234206075 "I " "-" "-" 99.991884161003 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 15 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0589669239782459 1.12434511662564 1.29496928736621 0.046493377454031 1.79342170973749 "I " "L" "-" 98.6773509965225 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 16 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty" "None"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty" "None"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 19 "Control strain plate" "Sample" "USDA" "" "YP"
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0459986844673101 0.256099056993136 1.74285082231178 0.110833972260523 1.7086432551943 "I " "-" "-" 99.9999955687937 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 20 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "logistic 4-par." 0.094586809109001 0.426236311576192 2.76070291990178 0.129985488302977 2.46359052165418 "I " "-" "-" 99.9999999852491 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 21 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.121127547834438 0.686895206195343 3.14369238195928 0.106168321707794 2.899473545094 "I " "-" "-" 99.9999999801291 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 22 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.129882547639779 1.04404130073079 2.93412602521094 0.121702902135689 2.75950289629821 "I " "-" "-" 99.9999893737237 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 23 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.120898411706254 1.33105577737345 2.72267556496827 0.12655592121228 2.86661364644022 "I " "-" "-" 99.9926319946813 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 24 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty" "None"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty" "None"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 27 "Control strain plate" "Sample" "Internal source" "" "YP"
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.0493379997843534 0.258082503402126 0.626040233021415 0.0848036154923235 1.54716159908115 "I " "-" "-" 99.9999968252864 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 28 "Control strain plate" "Sample" "Internal source" "" "YP+0.25% glucose"
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.093193485656018 0.411823417276531 1.71814140307729 0.0914099770407319 2.39970752160387 "I " "-" "-" 99.9999999910198 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 29 "Control strain plate" "Sample" "Internal source" "" "YP+0.5% glucose"
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.124582742622812 0.665080891230421 2.16563432426164 0.091100407355597 3.20379613427983 "I " "-" "-" 99.9999999995818 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 30 "Control strain plate" "Sample" "Internal source" "" "YP+1% glucose"
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.127931246989736 0.990156801382824 2.06117153412082 0.0876398778418972 2.98526874471877 "I " "L" "-" 99.9999999793615 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 31 "Control strain plate" "Sample" "Internal source" "" "YP+2% glucose"
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.115525592287136 1.30147912807139 1.85809576888812 0.0813644729068572 2.81287527921881 "I " "L" "-" 99.9999137792424 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 32 "Control strain plate" "Sample" "Internal source" "" "YP+5% glucose"
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty" "None"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty" "None"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 35 "Control strain plate" "Sample" "ATCC" "" "YP"
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0459359326345167 0.251845669441832 0.663293098031621 0.0603517553820379 1.37098828428178 "I " "-" "-" 99.9999879447413 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 36 "Control strain plate" "Sample" "ATCC" "" "YP+0.25% glucose"
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "richards 5-par." 0.094434689949163 0.470902886035373 1.8826288625178 0.0639276535310338 2.23793506472592 "I " "-" "-" 99.9999948852344 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 37 "Control strain plate" "Sample" "ATCC" "" "YP+0.5% glucose"
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.121520619472619 0.710378798342107 2.08888813058284 0.0796495197823908 2.69846627998211 "I " "-" "-" 99.9999978953908 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 38 "Control strain plate" "Sample" "ATCC" "" "YP+1% glucose"
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.128733154739806 0.984997029200378 2.0399797106055 0.0873954601678824 2.90166520842456 "I " "-" "-" 99.9999884375137 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 39 "Control strain plate" "Sample" "ATCC" "" "YP+2% glucose"
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.122721598738299 1.31537998678672 2.01398893630359 0.0697748020039699 3.02277302646044 "I " "L" "-" 99.9995991051657 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 40 "Control strain plate" "Sample" "ATCC" "" "YP+5% glucose"
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty" "None"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty" "None"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty" "None"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.0831016695295036 1.26198322710616 9.6341119668272 -0.0159936185251121 2.21763366074044 "E*" "L" "-" 97.6895368192497 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty" "None"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty" "None"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0913331265905349 0.979679343699591 3.89989293822063 0.0565463143969478 3.41803212615394 "I " "-" "-" 99.996754328781 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 51 "Control strain plate" "Sample" "USDA" "" "AFEX"
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0901758841312911 1.02553230430999 3.91431464072772 0.054347185302541 3.3582145530818 "I " "-" "-" 99.9933058334686 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 52 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.087653449479707 1.05312597876003 4.23604747636681 0.0485047709394144 3.43101493489101 "I " "-" "-" 99.9881620605088 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 53 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.0852505865256928 1.09709212221813 4.4160839430485 0.0528193717230026 3.32240181027237 "I " "-" "-" 99.9643803748374 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 54 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.0834062493600675 1.16328851193977 4.33330336969409 0.0489104172866142 3.24662867008 "I " "-" "-" 99.8772630755024 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 55 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0746869172685951 1.29976805435626 4.42703571454512 0.0546121442553045 3.36340266867229 "I " "-" "-" 98.4368902568205 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 56 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty" "None"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty" "None"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.11423563936283 1.11928465325468 2.95662866422492 0.10277417292392 3.07479264063237 "I " "-" "-" 99.9998423354262 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 59 "Control strain plate" "Sample" "USDA" "" "AFEX"
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.114214452831191 1.14837906885588 3.19068068041329 0.0872651968628158 3.13967373959083 "I " "-" "-" 99.9996783933085 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 60 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.113566098483318 1.18251324712617 3.15261697058665 0.0824132232798602 3.20643947548216 "I " "-" "-" 99.9993817260453 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 61 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.112827039600267 1.23375586100143 3.12591278868747 0.0877996040474751 3.18956938304341 "I " "-" "-" 99.9983920897484 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 62 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.110948155806134 1.28676660547704 3.25021471205597 0.0827447676928017 3.20897314216787 "I " "-" "-" 99.9946050160346 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 63 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104909957772007 1.38120323294419 3.5400282340856 0.0841025860310471 3.54895808838236 "I " "-" "-" 99.9341701264792 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 64 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty" "None"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty" "None"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.124619613670634 1.02546123083454 2.57717331265474 0.0790971076805143 3.1982856586391 "I " "-" "-" 99.9999985057572 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 67 "Control strain plate" "Sample" "Internal source" "" "AFEX"
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.123242472307703 1.0763049093573 2.58579779724471 0.0704104383586222 3.30084510513736 "I " "-" "-" 99.9999944424538 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 68 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.25% glucose"
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.12090087158723 1.10591407490241 2.49685751569192 0.0672398191226693 3.29576923039635 "I " "L" "-" 99.9999896715369 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 69 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.5% glucose"
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.119451758787832 1.16449508809393 2.44557526327415 0.0665918895911914 3.20509498580801 "I " "L" "-" 99.9999601611542 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 70 "Control strain plate" "Sample" "Internal source" "" "AFEX+1% glucose"
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.117046850703108 1.23459712335416 2.58701197446896 0.0611670849509847 3.14018976860492 "I " "L" "-" 99.9995704795227 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 71 "Control strain plate" "Sample" "Internal source" "" "AFEX+2% glucose"
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.108331393797411 1.34306781528512 2.65978833216588 0.0615660939241569 3.23212721890241 "I " "-" "-" 99.9822923993972 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 72 "Control strain plate" "Sample" "Internal source" "" "AFEX+5% glucose"
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty" "None"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty" "None"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.121839335770884 1.03411101157879 2.35496298854354 0.0684679645246347 2.99659166289529 "I " "-" "-" 99.9998739337277 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 75 "Control strain plate" "Sample" "ATCC" "" "AFEX"
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.123130424753602 1.0671848756261 2.62328252943635 0.0533919287920788 3.19928587493597 "I " "-" "-" 99.9998922931215 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 76 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.25% glucose"
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.120973126016907 1.08894424184742 2.61938690806177 0.0531493464712776 3.33630531768578 "I " "-" "-" 99.9998818237851 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 77 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.5% glucose"
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.120740948707418 1.1559165803317 2.69619009025558 0.048980878983772 3.36496106313806 "I " "-" "-" 99.9996105268543 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 78 "Control strain plate" "Sample" "ATCC" "" "AFEX+1% glucose"
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.121802166262885 1.22916108660807 2.69540468852973 0.0531433213499186 3.47334970863371 "I " "-" "-" 99.99890373284 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 79 "Control strain plate" "Sample" "ATCC" "" "AFEX+2% glucose"
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.112904136028813 1.3434348403126 2.71645828999368 0.0555677209128236 3.53967163281668 "I " "-" "-" 99.9786856044998 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 80 "Control strain plate" "Sample" "ATCC" "" "AFEX+5% glucose"
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty" "None"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty" "None"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty" "None"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty" "None"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty" "None"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty" "None"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.0972515006011796 1.24805373798836 14.8532035505196 -0.00367359356392638 2.38008868734198 "E*" "L/U" "-" 87.1867820927035 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty" "None"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty" "None"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty" "None"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty" "None"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty" "None"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty" "None"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty" "None"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty" "None"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty" "None"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty" "None"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_11.46.14.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty" "None"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 11:46:14
# completed: 2013-11-26 11:46:27
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 0.05
# - Removed points:
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/GCAT3/Points_Ignored.txt
Executable
+129
View File
@@ -0,0 +1,129 @@
"row" "plate" "well" "media" "strain" "model" "spec.growth" "tot.growth" "lag.time" "inoc.OD" "good.fit" "empty" "asymp" "tank" "reach" "other" "pdf.file" "page.no" "Destination.plate.name" "Well.ID" "Plate.source" "Well.Source" "Media.Definition"
1 "YPDAFEXglucoseTests_2-25-10" "A01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 2 "Control strain plate" "Empty" "Empty" "Empty" "None"
2 "YPDAFEXglucoseTests_2-25-10" "B01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 3 "Control strain plate" "Empty" "Empty" "Empty" "None"
3 "YPDAFEXglucoseTests_2-25-10" "C01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 4 "Control strain plate" "Empty" "Empty" "Empty" "None"
4 "YPDAFEXglucoseTests_2-25-10" "D01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 5 "Control strain plate" "Empty" "Empty" "Empty" "None"
5 "YPDAFEXglucoseTests_2-25-10" "E01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 6 "Control strain plate" "Empty" "Empty" "Empty" "None"
6 "YPDAFEXglucoseTests_2-25-10" "F01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 7 "Control strain plate" "Empty" "Empty" "Empty" "None"
7 "YPDAFEXglucoseTests_2-25-10" "G01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 8 "Control strain plate" "Empty" "Empty" "Empty" "None"
8 "YPDAFEXglucoseTests_2-25-10" "H01" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 9 "Control strain plate" "Empty" "Empty" "Empty" "None"
9 "YPDAFEXglucoseTests_2-25-10" "A02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 10 "Control strain plate" "Empty" "Empty" "Empty" "None"
10 "YPDAFEXglucoseTests_2-25-10" "B02" "YP" "Lab strain" "logistic 4-par." 0.00512322284611084 0.0885706705171092 0.00146885083119497 0.109882390197245 2.6703814889978 "I " "-" "-" 92.8305994745802 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 11 "Control strain plate" "Sample" "USDA" "" "YP"
11 "YPDAFEXglucoseTests_2-25-10" "C02" "YP+0.25% glucose" "Lab strain" "richards 5-par." 0.0459063906963165 0.241063286623944 2.41105819151703 0.0760544501191693 2.33445949677366 "I " "-" "-" 99.9998616892386 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 12 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
12 "YPDAFEXglucoseTests_2-25-10" "D02" "YP+0.5% glucose" "Lab strain" "richards 5-par." 0.0729653521516789 0.434572158524765 3.10530782875816 0.0912110779424646 2.66378208529322 "I " "-" "-" 99.99999403812 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 13 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
13 "YPDAFEXglucoseTests_2-25-10" "E02" "YP+1% glucose" "Lab strain" "richards 5-par." 0.087549003744991 0.680384078190256 3.41500410591867 0.078602369429122 3.04253253857771 "I " "-" "-" 99.999783493135 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 14 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
14 "YPDAFEXglucoseTests_2-25-10" "F02" "YP+2% glucose" "Lab strain" "logistic 4-par." 0.0835036622875622 0.849207863293472 2.94083431769237 0.0735497372002751 2.71606517889471 "I " "-" "-" 99.9920437081347 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 15 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
15 "YPDAFEXglucoseTests_2-25-10" "G02" "YP+5% glucose" "Lab strain" "logistic 4-par." 0.0605784733145486 1.11352517731425 1.48539390611669 0.0496177952902848 1.88568659491702 "I " "L" "-" 98.9719626898602 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 16 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
16 "YPDAFEXglucoseTests_2-25-10" "H02" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 17 "Control strain plate" "Empty" "Empty" "Empty" "None"
17 "YPDAFEXglucoseTests_2-25-10" "A03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 18 "Control strain plate" "Empty" "Empty" "Empty" "None"
18 "YPDAFEXglucoseTests_2-25-10" "B03" "YP" "Wild strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 19 "Control strain plate" "Sample" "USDA" "" "YP"
19 "YPDAFEXglucoseTests_2-25-10" "C03" "YP+0.25% glucose" "Wild strain" "logistic 4-par." 0.0457475800711658 0.256904287297204 1.72691879921013 0.110606719040152 1.77859625443674 "I " "-" "-" 99.9999947777523 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 20 "Control strain plate" "Sample" "USDA" "" "YP+0.25% glucose"
20 "YPDAFEXglucoseTests_2-25-10" "D03" "YP+0.5% glucose" "Wild strain" "logistic 4-par." 0.0944654373655411 0.426655260550642 2.75828968419929 0.12991755273642 2.52869451465839 "I " "-" "-" 99.9999999844561 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 21 "Control strain plate" "Sample" "USDA" "" "YP+0.5% glucose"
21 "YPDAFEXglucoseTests_2-25-10" "E03" "YP+1% glucose" "Wild strain" "richards 5-par." 0.121095965736346 0.687037999671402 3.14313398289071 0.106191053770912 2.95478381597453 "I " "-" "-" 99.9999999793889 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 22 "Control strain plate" "Sample" "USDA" "" "YP+1% glucose"
22 "YPDAFEXglucoseTests_2-25-10" "F03" "YP+2% glucose" "Wild strain" "richards 5-par." 0.129855086205514 1.04449449227513 2.93366816024193 0.121714484234362 2.81436465576683 "I " "-" "-" 99.9999891316078 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 23 "Control strain plate" "Sample" "USDA" "" "YP+2% glucose"
23 "YPDAFEXglucoseTests_2-25-10" "G03" "YP+5% glucose" "Wild strain" "richards 5-par." 0.120898435937539 1.32764962491579 2.72323240077344 0.127905341227191 3.00797833267527 "I " "-" "-" 99.9912733187558 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 24 "Control strain plate" "Sample" "USDA" "" "YP+5% glucose"
24 "YPDAFEXglucoseTests_2-25-10" "H03" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 25 "Control strain plate" "Empty" "Empty" "Empty" "None"
25 "YPDAFEXglucoseTests_2-25-10" "A04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 26 "Control strain plate" "Empty" "Empty" "Empty" "None"
26 "YPDAFEXglucoseTests_2-25-10" "B04" "YP" "Industrial strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 27 "Control strain plate" "Sample" "Internal source" "" "YP"
27 "YPDAFEXglucoseTests_2-25-10" "C04" "YP+0.25% glucose" "Industrial strain" "logistic 4-par." 0.049113938942915 0.258748737037695 0.611171874481659 0.0845578831007956 1.61316239160049 "I " "-" "-" 99.9999962105762 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 28 "Control strain plate" "Sample" "Internal source" "" "YP+0.25% glucose"
28 "YPDAFEXglucoseTests_2-25-10" "D04" "YP+0.5% glucose" "Industrial strain" "logistic 4-par." 0.093074527600122 0.412178246785743 1.71538098733957 0.0913303370508307 2.46532958224324 "I " "-" "-" 99.9999999905309 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 29 "Control strain plate" "Sample" "Internal source" "" "YP+0.5% glucose"
29 "YPDAFEXglucoseTests_2-25-10" "E04" "YP+1% glucose" "Industrial strain" "richards 5-par." 0.124584782390426 0.665071528928034 2.16566832060573 0.09109869026466 3.26118827375832 "I " "-" "-" 99.9999999995832 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 30 "Control strain plate" "Sample" "Internal source" "" "YP+1% glucose"
30 "YPDAFEXglucoseTests_2-25-10" "F04" "YP+2% glucose" "Industrial strain" "richards 5-par." 0.12792707646206 0.990201196030809 2.06107722840498 0.087648083744547 3.04010612494743 "I " "L" "-" 99.9999999791478 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 31 "Control strain plate" "Sample" "Internal source" "" "YP+2% glucose"
31 "YPDAFEXglucoseTests_2-25-10" "G04" "YP+5% glucose" "Industrial strain" "richards 5-par." 0.115598093951232 1.30017594724392 1.86057928629408 0.0816316115810476 2.87659439741231 "I " "L" "-" 99.9999089635063 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 32 "Control strain plate" "Sample" "Internal source" "" "YP+5% glucose"
32 "YPDAFEXglucoseTests_2-25-10" "H04" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 33 "Control strain plate" "Empty" "Empty" "Empty" "None"
33 "YPDAFEXglucoseTests_2-25-10" "A05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 34 "Control strain plate" "Empty" "Empty" "Empty" "None"
34 "YPDAFEXglucoseTests_2-25-10" "B05" "YP" "Engineered strain" "<NA>: failed" NA NA NA NA NA "I " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 35 "Control strain plate" "Sample" "ATCC" "" "YP"
35 "YPDAFEXglucoseTests_2-25-10" "C05" "YP+0.25% glucose" "Engineered strain" "logistic 4-par." 0.0455423852277455 0.253011492887766 0.633612783422165 0.0599180880707215 1.44199308592877 "I " "-" "-" 99.9999836645589 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 36 "Control strain plate" "Sample" "ATCC" "" "YP+0.25% glucose"
36 "YPDAFEXglucoseTests_2-25-10" "D05" "YP+0.5% glucose" "Engineered strain" "richards 5-par." 0.0942560771156105 0.47165366043215 1.87947890043788 0.0641152719303668 2.32215880898724 "I " "-" "-" 99.9999936292908 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 37 "Control strain plate" "Sample" "ATCC" "" "YP+0.5% glucose"
37 "YPDAFEXglucoseTests_2-25-10" "E05" "YP+1% glucose" "Engineered strain" "richards 5-par." 0.121404566371326 0.711085043803959 2.08707581462709 0.079800634332521 2.77857179654498 "I " "-" "-" 99.9999975813868 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 38 "Control strain plate" "Sample" "ATCC" "" "YP+1% glucose"
38 "YPDAFEXglucoseTests_2-25-10" "F05" "YP+2% glucose" "Engineered strain" "richards 5-par." 0.12865948433987 0.98597671409577 2.03868589008582 0.087495143007229 2.98217250669466 "I " "-" "-" 99.9999873691302 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 39 "Control strain plate" "Sample" "ATCC" "" "YP+2% glucose"
39 "YPDAFEXglucoseTests_2-25-10" "G05" "YP+5% glucose" "Engineered strain" "richards 5-par." 0.122711103907082 1.31562500185075 2.01371509312624 0.0697603778582843 3.07643306357741 "I " "L" "-" 99.999598061796 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 40 "Control strain plate" "Sample" "ATCC" "" "YP+5% glucose"
40 "YPDAFEXglucoseTests_2-25-10" "H05" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 41 "Control strain plate" "Empty" "Empty" "Empty" "None"
41 "YPDAFEXglucoseTests_2-25-10" "A06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 42 "Control strain plate" "Empty" "Empty" "Empty" "None"
42 "YPDAFEXglucoseTests_2-25-10" "B06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 43 "Control strain plate" "Empty" "Empty" "Empty" "None"
43 "YPDAFEXglucoseTests_2-25-10" "C06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 44 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
44 "YPDAFEXglucoseTests_2-25-10" "D06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 45 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
45 "YPDAFEXglucoseTests_2-25-10" "E06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 46 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
46 "YPDAFEXglucoseTests_2-25-10" "F06" "Empty" "Empty" "richards 5-par." 0.0857882390552096 1.24493866823306 9.88179192729724 -0.0165597461168613 2.32606464578444 "E*" "L" "-" 98.4210828771573 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 47 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
47 "YPDAFEXglucoseTests_2-25-10" "G06" "Empty" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 48 "Control strain plate" "Empty" "Empty" "Empty" "Empty"
48 "YPDAFEXglucoseTests_2-25-10" "H06" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 49 "Control strain plate" "Empty" "Empty" "Empty" "None"
49 "YPDAFEXglucoseTests_2-25-10" "A07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 50 "Control strain plate" "Empty" "Empty" "Empty" "None"
50 "YPDAFEXglucoseTests_2-25-10" "B07" "AFEX" "Lab strain" "richards 5-par." 0.0910656809877224 0.978831696720056 3.88851123944356 0.057119562600749 3.50838381966352 "I " "-" "-" 99.9960539072354 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 51 "Control strain plate" "Sample" "USDA" "" "AFEX"
51 "YPDAFEXglucoseTests_2-25-10" "C07" "AFEX+0.25% glucose" "Lab strain" "richards 5-par." 0.0897750856169793 1.02459532986805 3.8967929087061 0.0551818328016911 3.46998372922229 "I " "-" "-" 99.991259133915 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 52 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
52 "YPDAFEXglucoseTests_2-25-10" "D07" "AFEX+0.5% glucose" "Lab strain" "richards 5-par." 0.087292525747305 1.0527501330422 4.21907836932876 0.0490476413563776 3.51721701779359 "I " "-" "-" 99.9856386878846 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 53 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
53 "YPDAFEXglucoseTests_2-25-10" "E07" "AFEX+1% glucose" "Lab strain" "richards 5-par." 0.0854275766875656 1.09681106370395 4.42403082220079 0.0527978561023557 3.39981186901509 "I " "-" "-" 99.9660125813752 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 54 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
54 "YPDAFEXglucoseTests_2-25-10" "F07" "AFEX+2% glucose" "Lab strain" "richards 5-par." 0.084278824827003 1.16188034043041 4.37444626455929 0.0484042275684464 3.40906624822256 "I " "-" "-" 99.9039249274661 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 55 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
55 "YPDAFEXglucoseTests_2-25-10" "G07" "AFEX+5% glucose" "Lab strain" "richards 5-par." 0.0751490389653923 1.29671192755065 4.45016704465737 0.0546480394626687 3.48603212189912 "I " "-" "-" 98.5357819689647 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 56 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
56 "YPDAFEXglucoseTests_2-25-10" "H07" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 57 "Control strain plate" "Empty" "Empty" "Empty" "None"
57 "YPDAFEXglucoseTests_2-25-10" "A08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 58 "Control strain plate" "Empty" "Empty" "Empty" "None"
58 "YPDAFEXglucoseTests_2-25-10" "B08" "AFEX" "Wild strain" "richards 5-par." 0.114233577227138 1.11940666165336 2.95659685349929 0.10276070095978 3.12523138568832 "I " "-" "-" 99.9998425058726 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 59 "Control strain plate" "Sample" "USDA" "" "AFEX"
59 "YPDAFEXglucoseTests_2-25-10" "C08" "AFEX+0.25% glucose" "Wild strain" "richards 5-par." 0.114190896575847 1.14811138681943 3.18991017237117 0.0873694909800864 3.19174147527227 "I " "-" "-" 99.9996684768339 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 60 "Control strain plate" "Sample" "USDA" "" "AFEX+0.25% glucose"
60 "YPDAFEXglucoseTests_2-25-10" "D08" "AFEX+0.5% glucose" "Wild strain" "richards 5-par." 0.113518812542465 1.18182740070708 3.15106253292283 0.0826636113465304 3.26600840866822 "I " "-" "-" 99.9993405132836 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 61 "Control strain plate" "Sample" "USDA" "" "AFEX+0.5% glucose"
61 "YPDAFEXglucoseTests_2-25-10" "E08" "AFEX+1% glucose" "Wild strain" "richards 5-par." 0.112731557723291 1.23243667600584 3.12290823666719 0.0883532618105942 3.27099839140732 "I " "-" "-" 99.998177929312 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 62 "Control strain plate" "Sample" "USDA" "" "AFEX+1% glucose"
62 "YPDAFEXglucoseTests_2-25-10" "F08" "AFEX+2% glucose" "Wild strain" "richards 5-par." 0.110711220465384 1.28465314801447 3.24291094200068 0.0838703449391198 3.34935047015509 "I " "-" "-" 99.9932361128704 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 63 "Control strain plate" "Sample" "USDA" "" "AFEX+2% glucose"
63 "YPDAFEXglucoseTests_2-25-10" "G08" "AFEX+5% glucose" "Wild strain" "richards 5-par." 0.104911901010651 1.38112995826321 3.54007980934916 0.0841275019173986 3.60183900056643 "I " "-" "-" 99.9340428851054 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 64 "Control strain plate" "Sample" "USDA" "" "AFEX+5% glucose"
64 "YPDAFEXglucoseTests_2-25-10" "H08" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 65 "Control strain plate" "Empty" "Empty" "Empty" "None"
65 "YPDAFEXglucoseTests_2-25-10" "A09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 66 "Control strain plate" "Empty" "Empty" "Empty" "None"
66 "YPDAFEXglucoseTests_2-25-10" "B09" "AFEX" "Industrial strain" "richards 5-par." 0.124639558557251 1.02518255796904 2.57760580712995 0.0790861200979034 3.25359624987887 "I " "-" "-" 99.9999985380202 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 67 "Control strain plate" "Sample" "Internal source" "" "AFEX"
67 "YPDAFEXglucoseTests_2-25-10" "C09" "AFEX+0.25% glucose" "Industrial strain" "richards 5-par." 0.123259617514217 1.07597966901492 2.58617748296761 0.0704118282374251 3.3564765167362 "I " "-" "-" 99.9999945229239 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 68 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.25% glucose"
68 "YPDAFEXglucoseTests_2-25-10" "D09" "AFEX+0.5% glucose" "Industrial strain" "richards 5-par." 0.120921387314129 1.1054141886015 2.49733136040803 0.0672610858991924 3.35561723828862 "I " "L" "-" 99.999989789286 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 69 "Control strain plate" "Sample" "Internal source" "" "AFEX+0.5% glucose"
69 "YPDAFEXglucoseTests_2-25-10" "E09" "AFEX+1% glucose" "Industrial strain" "richards 5-par." 0.119469215205307 1.16386920095508 2.44599900455348 0.0666632835088954 3.26495706766016 "I " "L" "-" 99.9999598857272 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 70 "Control strain plate" "Sample" "Internal source" "" "AFEX+1% glucose"
70 "YPDAFEXglucoseTests_2-25-10" "F09" "AFEX+2% glucose" "Industrial strain" "richards 5-par." 0.117055956532607 1.23292877894923 2.58733736534061 0.0615930499531776 3.23191783299634 "I " "-" "-" 99.9995312927806 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 71 "Control strain plate" "Sample" "Internal source" "" "AFEX+2% glucose"
71 "YPDAFEXglucoseTests_2-25-10" "G09" "AFEX+5% glucose" "Industrial strain" "richards 5-par." 0.108245104945905 1.34096953377871 2.65843365395388 0.062727700859311 3.38843037787812 "I " "-" "-" 99.9788375045276 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 72 "Control strain plate" "Sample" "Internal source" "" "AFEX+5% glucose"
72 "YPDAFEXglucoseTests_2-25-10" "H09" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 73 "Control strain plate" "Empty" "Empty" "Empty" "None"
73 "YPDAFEXglucoseTests_2-25-10" "A10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 74 "Control strain plate" "Empty" "Empty" "Empty" "None"
74 "YPDAFEXglucoseTests_2-25-10" "B10" "AFEX" "Engineered strain" "richards 5-par." 0.121764774087552 1.03575182594995 2.35350455581128 0.0683841865814427 3.10711688897198 "I " "-" "-" 99.9998704011685 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 75 "Control strain plate" "Sample" "ATCC" "" "AFEX"
75 "YPDAFEXglucoseTests_2-25-10" "C10" "AFEX+0.25% glucose" "Engineered strain" "richards 5-par." 0.123090824730516 1.06842524515535 2.62256716415931 0.0532958289475007 3.29457027142756 "I " "-" "-" 99.9998916790283 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 76 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.25% glucose"
76 "YPDAFEXglucoseTests_2-25-10" "D10" "AFEX+0.5% glucose" "Engineered strain" "richards 5-par." 0.120944684388312 1.09008552670784 2.61886063345403 0.0530365880953372 3.43451356445556 "I " "-" "-" 99.9998823965125 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 77 "Control strain plate" "Sample" "ATCC" "" "AFEX+0.5% glucose"
77 "YPDAFEXglucoseTests_2-25-10" "E10" "AFEX+1% glucose" "Engineered strain" "richards 5-par." 0.120734107580927 1.15670253081866 2.69611302714549 0.0488445587231696 3.43432940804069 "I " "-" "-" 99.999618979496 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 78 "Control strain plate" "Sample" "ATCC" "" "AFEX+1% glucose"
78 "YPDAFEXglucoseTests_2-25-10" "F10" "AFEX+2% glucose" "Engineered strain" "richards 5-par." 0.121797460706957 1.22927410593987 2.69529695023975 0.0531367705332191 3.52592526978957 "I " "-" "-" 99.998902414812 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 79 "Control strain plate" "Sample" "ATCC" "" "AFEX+2% glucose"
79 "YPDAFEXglucoseTests_2-25-10" "G10" "AFEX+5% glucose" "Engineered strain" "richards 5-par." 0.1128494281004 1.3421800558205 2.71555080399082 0.0562414213905349 3.66293619120109 "I " "-" "-" 99.9765721559617 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 80 "Control strain plate" "Sample" "ATCC" "" "AFEX+5% glucose"
80 "YPDAFEXglucoseTests_2-25-10" "H10" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 81 "Control strain plate" "Empty" "Empty" "Empty" "None"
81 "YPDAFEXglucoseTests_2-25-10" "A11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 82 "Control strain plate" "Empty" "Empty" "Empty" "None"
82 "YPDAFEXglucoseTests_2-25-10" "B11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 83 "Control strain plate" "Empty" "Empty" "Empty" "None"
83 "YPDAFEXglucoseTests_2-25-10" "C11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 84 "Control strain plate" "Empty" "Empty" "Empty" "None"
84 "YPDAFEXglucoseTests_2-25-10" "D11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 85 "Control strain plate" "Empty" "Empty" "Empty" "None"
85 "YPDAFEXglucoseTests_2-25-10" "E11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 86 "Control strain plate" "Empty" "Empty" "Empty" "None"
86 "YPDAFEXglucoseTests_2-25-10" "F11" "None" "Empty" "logistic 4-par." 0.0955422988477089 1.27434659362621 14.7977758044825 -0.00282569557385737 2.58074649545863 "E*" "L/U" "-" 85.8739348760869 "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 87 "Control strain plate" "Empty" "Empty" "Empty" "None"
87 "YPDAFEXglucoseTests_2-25-10" "G11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 88 "Control strain plate" "Empty" "Empty" "Empty" "None"
88 "YPDAFEXglucoseTests_2-25-10" "H11" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 89 "Control strain plate" "Empty" "Empty" "Empty" "None"
89 "YPDAFEXglucoseTests_2-25-10" "A12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 90 "Control strain plate" "Empty" "Empty" "Empty" "None"
90 "YPDAFEXglucoseTests_2-25-10" "B12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 91 "Control strain plate" "Empty" "Empty" "Empty" "None"
91 "YPDAFEXglucoseTests_2-25-10" "C12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 92 "Control strain plate" "Empty" "Empty" "Empty" "None"
92 "YPDAFEXglucoseTests_2-25-10" "D12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 93 "Control strain plate" "Empty" "Empty" "Empty" "None"
93 "YPDAFEXglucoseTests_2-25-10" "E12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 94 "Control strain plate" "Empty" "Empty" "Empty" "None"
94 "YPDAFEXglucoseTests_2-25-10" "F12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 95 "Control strain plate" "Empty" "Empty" "Empty" "None"
95 "YPDAFEXglucoseTests_2-25-10" "G12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 96 "Control strain plate" "Empty" "Empty" "Empty" "None"
96 "YPDAFEXglucoseTests_2-25-10" "H12" "None" "Empty" "<NA>: skipped" NA NA NA NA NA "E " "-" "-" NA "" "YPDAFEXglucoseTests_2-25-10_plots_2013-11-26_12.08.40.pdf" 97 "Control strain plate" "Empty" "Empty" "Empty" "None"
# -- Explanation of columns --
# - model: Name of the model the well was successfully fit with (if any)
# - spec.growth: (Specific growth rate) The largest exponential growth rate achieved by the culture in the course of the experiment
# - tot.growth: (Total extrapolated growth) The estimated growth plateau from the fitted model in optical density units. May be higher than the actual highest OD reached.
# - lag.time: (Lag time) The exponential trend from <spec.growth> is extrapolated to the baseline OD at inoculation and subtracted from the time at inoculation to yield lag time.
# - inoc.OD: (OD at inoculation) The adjusted optical density at the user-specified starting timepoint.
# - good.fit: (Goodness of fit) A metric based on root mean square deviations (RMSD).
# - higher values ( > 3.0) indicate a very good fit while lower values (< 2.0) indicate generally unacceptable fits.
# - empty: (Well indicator)
# - an 'E' indicates that the well was empty and no growth was detected.
# - an 'I' indicates that the well was inoculated and growth was detected above the threshold.
# - an 'E*' indicates that the well was empty and growth was detected (possible contamination).
# - an '!' indicates that the well was inoculated and no growth was detected.
# - tank: (Tanking indicator) If a number is present then the growth trend was determined to tank at that timepoint index.
# - reach: (Final growth percentage): The percentage of <tot.growth> reached by the culture in the course of the experiment.
# - other: Other information includes output from jump detection algorithm and additional columns from the Plate Layout.
# - pdf.file and page.no: location of the figure for this well in the output .pdf files.
#
# -- Source file information--
# YPDAFEXglucoseTests_2-25-10.csv
# analyzed using GCAT v 0.01
# request sent: 2013-11-26 12:08:40
# completed: 2013-11-26 12:08:55
#
# -- Parameters used in current analysis --
# - Constant added to log(OD + n) transformation: 1
# - Blank OD value: First timepoint in well
# - Index of inoculation timepoint 2
# - Minimum growth threshold: 0.05
# - Removed points: 70 71 72 73 74 75 76 77 78 79
# - Jump detection: FALSE
Testing/GCAT_Automated_Test_Script/compare_gcat_output.R
Executable
+100
View File
@@ -0,0 +1,100 @@
#!/usr/bin/env Rscript
# Compare 2 versions of GCAT for a particular parameter
# Karan Maini
args <- commandArgs(TRUE)
# Baaad....WORK.DIR = "/home/maini/Desktop/GCAT Test Script"
# INPUT.1 = "GCAT2/output_gcat.fit_2013-11-18_12.23.34.txt"
# INPUT.2 = "GCAT3/output_gcat.fit_2013-11-18_12.19.46.txt"
# Read in the data
in1 = read.table(args[1],header=T,sep="\t")
in2 = read.table(args[2],header=T,sep="\t")
parameter = args[3]
# Compare values
same = signif(in1$spec.growth,2) == signif(in2$spec.growth,2) & signif(in1$tot.growth,2) == signif(in2$tot.growth,2) & signif(in1$lag.time,2) == signif(in2$lag.time,2)
same[is.na(in1$spec.growth) & is.na(in2$spec.growth)] = T
# Write out the output
#out = file(OUTPUT,open="w")
#if (all(same)) { writeLines("No significant differences identified",con=out) }
#close(out)
# Manual exploration
# Ascertain that results are quite different
cat("Command:\nRscript compare_gcat_output.R",args[1],args[2],parameter)
cat("\n\nSummary: \n\n")
summary(same)
head(same)
cat("\n\nGCAT2: \n\n")
head(in1)
cat("\n\nGCAT3: \n\n")
head(in2)
cat("\n\nSpecific Growth Comparison Summary: \n\n")
summary(in2$spec.growth/in1$spec.growth) # specific growth lower in GCAT 3
cat("\n\nTotal Growth Comparison Summary: \n\n")
summary(in2$tot.growth/in1$tot.growth)
cat("\n\nLag Time Comparison Summary: \n\n")
summary(in2$lag.time/in1$lag.time) # lag time also lower in GCAT 3
# Baaad....WORK.DIR = "/home/maini/Desktop/GCAT Test Script/Comparison Plots"
setwd("./Comparison Plots")
pdf( paste( parameter,'Plot.pdf'),onefile=T)
# ....plot code here....
# Plot specific growth rate of GCAT 3 vs. GCAT 2
x = in1$spec.growth
y = in2$spec.growth
plot(x,y,pch=16,main="Specific Growth", xlab="old GCAT", ylab="new GCAT")
abline(0,1)
abline(lm(y~x),lty=2)
legend("bottomright",c("y=x line","regression line"),lty=c(1,2))
# Plot total growth rate of GCAT 3 vs. GCAT 2
x = in1$tot.growth
y = in2$tot.growth
plot(x,y,pch=16,main="Total Growth", xlab="old GCAT", ylab="new GCAT")
abline(0,1)
abline(lm(y~x),lty=2)
legend("bottomright",c("y=x line","regression line"),lty=c(1,2))
# Plot lag time of GCAT 3 vs. GCAT 2
x = in1$lag.time
y = in2$lag.time
plot(x,y,pch=16,main="Lag Time", xlab="old GCAT", ylab="new GCAT")
abline(0,1)
abline(lm(y~x),lty=2)
legend("bottomright",c("y=x line","regression line"),lty=c(1,2))
# Plot Goodness of Fit of GCAT 3 vs. GCAT 2
x = in1$good.fit
y = in2$good.fit
plot(x,y,pch=16,main="Goodness of Fit", xlab="old GCAT", ylab="new GCAT")
abline(0,1)
abline(lm(y~x),lty=2)
legend("bottomright",c("y=x line","regression line"),lty=c(1,2))
dev.off()
# Investigate outliers
subset(in1, is.finite(in1$spec.growth) & (in1$spec.growth < in2$spec.growth - 0.003))
subset(in2, is.finite(in1$spec.growth) & (in1$spec.growth < in2$spec.growth - 0.003))
# Clean up
rm(list=ls())
setwd("../") #move back to testing root directory
Testing/GCAT_Automated_Test_Script/gcat_diff.rb
Executable
+57
View File
@@ -0,0 +1,57 @@
#!/usr/bin/env ruby
def usage rc, *args
case rc
when "argv"
puts "Usage: ./gcat_diff.rb <gcat-test>/ <gcat-production>/"
# puts "<gcat-test> is a directory of output files processed on gcat-test.glbrc"
# puts "<gcat-production> is a directory holding output files processed on gcat.glbrc"
when "names"
puts "Error: both directories must contain output files with identical file names."
when "dir"
puts "Error: #{args.first} is not a directory."
when "empty"
puts "No files found to analyze."
end
puts "for help: ./gcat_diff.rb help"
exit 0
end
def line
80.times {print "#"}
puts ""
end
def help
line
puts "# gcat_diff.rb\n#"
puts "# This program was designed to verify that any changes made to gcat-test\n# have not changed the numeric values of the output data in any meaningful way.\n# gcat_diff is the script used to automate this process.\n# To use the script you must have R and ruby installed.\n# Once you are ready to run the comparison analysis follow these steps:\n# In a directory containing both script files\n# [gcat_diff.rb and compare_gcat_output.R]\n# create 2 new directories to store the output files.\n# One will be for files from gcat-test.glbrc.org\n# and the other will be for gcat.glbrc.org.\n# Place any number of output files desired into\n# these directories following this important convention.\n# See the GCAT manual for help on producing these files.\n# Note: The needed output files will be text format.\n# Each output file must be run on GCAT\n# using the same PARAMETERS and share the same NAME.\n# This way you can analyze many output files at once,\n# with each pair being run onproduction & test\n# using the same parameters and compared in tandem.\n# \n# Nate DiPiazza, Karan Maini GLBRC 2014"
line
exit 1
end
if(ARGV.size == 1)
usage "argv" unless ARGV.first == "help"
help
end
usage "argv" unless ARGV.size == 2
ARGV.each {|arg| usage "dir", arg unless File.directory?(arg)}
#check the contents of the 2 dirs. files must have same filenames
paths_test = Dir.glob("#{ARGV[0]}/*").sort
filenames_test = paths_test.map {|p| File.basename(p)}
paths_prod = Dir.glob("#{ARGV[1]}/*").sort
usage "empty" unless((paths_test.size > 0) and (paths_prod.size > 0))
filenames_prod = paths_prod.map {|p| File.basename(p)}
usage "names" unless filenames_test == filenames_prod
#filenames_prod would work too. they are equal
filenames_test.each do |filename|
# run the R script
command = `Rscript compare_gcat_output.R #{ARGV[0]}/#{filename} #{ARGV[1]}/#{filename} #{filename}`
# write R summary printouts to a file
File.open("Comparison_Datasets/#{filename}", "w") {|f| f.puts command; f.close }
end
Testing/GCAT_Automated_Test_Script/script.py
Executable
+66
View File
@@ -0,0 +1,66 @@
import sys
import os
import glob
def usage():
print 'python <script_name>.py <directory_path_1> <directory_path_2>'
print 'directory_path_1 --> GCAT2 and directory_path_2 --> GCAT3'
print 'Eg: python ./script.py ./GCAT2 ./GCAT3'
def main():
first_dir_path = sys.argv[1]
second_dir_path = sys.argv[2]
files1=[]
files2=[]
parameter_list=[]
for root,dirs,files in os.walk(first_dir_path):
files1.extend(files)
print 'Files in GCAT2:'
print files1
print '\n'
for root,dirs,files in os.walk(second_dir_path):
files2.extend(files)
print 'Files in GCAT3:'
print files2
print '\n'
print 'Common Files:'
print [f for f in files2 if f in files1]
print '\n'
for f in files2:
if f in files1:
parameter_list.append(f[:-4])
# print parameter_list
# using glob
# parameter_list = ['Media_Background','OD_Transform', 'Inoculation', 'Points_Ignored', 'Growth_Threshold']
for parameter in parameter_list:
file_1 = glob.glob(first_dir_path+"/"+parameter + "*.txt")
file_2 = glob.glob(second_dir_path+"/"+parameter + "*.txt")
print file_1
print file_2
if len(file_1)==1 and len(file_2)==1:
# run it on command line
command = "Rscript compare_gcat_output.R "+ file_1[0] + " " + file_2[0] + " " + parameter
print command
os.system(command + '>' + './Comparison_Datasets/' + parameter + '.txt') # run it on command line
print 'done'
else:
print 'Multiple files found for the parameter' + parameter
if __name__ == '__main__':
# 2 arguments required other than script name:
# script name, dir_path_1, dir_path_2
# If insufficent command line arguments are passed, usage must be printed
if len(sys.argv) != 3:
usage()
# else continue with execution of script
else:
main()