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23 lines
1.1 KiB
23 lines
1.1 KiB
# Analyze growth curve data and generate outputs and plots from an R session using GCAT package
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library(GCAT)
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INPUT.DIR = "/mnt/file.glbrc.org/ybukhman/Projects/GCAT_B05/B05.19 GCAT 4/3_GCAT_example_data_analysis"
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INPUT.FILE = "YPDAFEXglucoseTests_2-25-10.csv"
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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"
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start.index = 2
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# gcat.analysis.main expects to see this object in the environment from which it is called:
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time.input = 1/3600
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#time.input = "%m/%d/%Y %H:%M"
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setwd(INPUT.DIR)
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out = gcat.analysis.main(file.list = INPUT.FILE, single.plate = T, layout.file = NULL,
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out.dir = OUTPUT.DIR, graphic.dir = OUTPUT.DIR,
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add.constant = 1, blank.value = NULL, start.index = start.index, growth.cutoff = 0.05,
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use.linear.param=F, use.loess=F, smooth.param=0.1,
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points.to.remove = 0, remove.jumps = F,
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silent = F, verbose = T, return.fit = T, overview.jpgs = T)
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