You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
23 lines
1.1 KiB
23 lines
1.1 KiB
10 years ago
|
# Analyze growth curve data and generate outputs and plots from an R session using GCAT package
|
||
|
|
||
|
library(GCAT)
|
||
|
|
||
|
INPUT.DIR = "/mnt/file.glbrc.org/ybukhman/Projects/GCAT_B05/B05.19 GCAT 4/3_GCAT_example_data_analysis"
|
||
|
INPUT.FILE = "YPDAFEXglucoseTests_2-25-10.csv"
|
||
|
OUTPUT.DIR = "/mnt/file.glbrc.org/ybukhman/Projects/GCAT_B05/B05.19 GCAT 4/3_GCAT_example_data_analysis/GCAT_4.4_debug/v467__single_plate_sigmoid"
|
||
|
start.index = 2
|
||
|
|
||
|
# gcat.analysis.main expects to see this object in the environment from which it is called:
|
||
|
time.input = 1/3600
|
||
|
#time.input = "%m/%d/%Y %H:%M"
|
||
|
|
||
|
setwd(INPUT.DIR)
|
||
|
out = gcat.analysis.main(file.list = INPUT.FILE, single.plate = T, layout.file = NULL,
|
||
|
out.dir = OUTPUT.DIR, graphic.dir = OUTPUT.DIR,
|
||
|
add.constant = 1, blank.value = NULL, start.index = start.index, growth.cutoff = 0.05,
|
||
|
use.linear.param=F, use.loess=F, smooth.param=0.1,
|
||
|
points.to.remove = 0, remove.jumps = F,
|
||
|
silent = F, verbose = T, return.fit = T, overview.jpgs = T)
|
||
|
|
||
|
|