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

Fixed #11: validation of heat map ranges

Browse Source
This commit is contained in:
Yury V Bukhman
2015-07-03 17:52:28 -05:00
parent 1263d43ce3
commit 892e301c71
7 changed files with 32 additions and 9 deletions
Download Patch File Download Diff File Expand all files Collapse all files
R/GCAT/inst/extdata/heatmap_tests/test_heatmap_limits.R
Vendored
+8 -7
View File
@@ -11,13 +11,6 @@ INPUT.FILE = "YPDAFEXglucoseTests_2-25-10.csv"
library(GCAT)
setwd(INPUT.DIR)
time.input=1/3600
# - do not specify parameter ranges
out1 = gcat.analysis.main(file.list = INPUT.FILE, single.plate = T, layout.file = NULL,
out.dir = OUTPUT.DIR.1, graphic.dir = OUTPUT.DIR.1,
add.constant = 1, blank.value = NULL, start.index = 2, growth.cutoff = 0.05,
use.linear.param=F, use.loess=F, smooth.param=0.1,
points.to.remove = integer(), remove.jumps = F, time.input=time.input,
silent = F, verbose = T, return.fit = T, overview.jpgs = T)
# - do specify parameter ranges
out2 = gcat.analysis.main(file.list = INPUT.FILE, single.plate = T, layout.file = NULL,
@@ -28,5 +21,13 @@ out2 = gcat.analysis.main(file.list = INPUT.FILE, single.plate = T, layout.file
silent = F, verbose = T, return.fit = T, overview.jpgs = T,
lagRange = c(0,3), totalRange = c(0.2,0.82), totalODRange = c(0.06,1), specRange = c(0.04,0.13))
# - do not specify parameter ranges
out1 = gcat.analysis.main(file.list = INPUT.FILE, single.plate = T, layout.file = NULL,
out.dir = OUTPUT.DIR.1, graphic.dir = OUTPUT.DIR.1,
add.constant = 1, blank.value = NULL, start.index = 2, growth.cutoff = 0.05,
use.linear.param=F, use.loess=F, smooth.param=0.1,
points.to.remove = integer(), remove.jumps = F, time.input=time.input,
silent = F, verbose = T, return.fit = T, overview.jpgs = T)
# Verify that specifying parameter ranges did not affect any computations except for how the heat maps are drawn
all.equal(out1,out2)