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| title | set up idev session in another tab |
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ssh <username>@stampede2.tacc.utexas.edu
idev -m 120 -q normal -A UT-2015-05-18 -r RNAday4
RNASeq-Thu |
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| title | Get set up for the exercise |
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#We will be doing all this in the idev session
cds
cd my_rnaseq_course/day_4_partA/wgcna |
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| title | Load biocontainer R modules |
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module load biocontainers
module load r-flashclust/ctr-1.01_2--r3.3.2_0
module load r-wgcna/ctr-1.51--r3.3.2_10 |
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R CMD BATCH WGCNAshortTutorial.R |
Below are the details of the R code you just kicked off above. NO NEED TO RUN THESE LINE BY LINE!
Step 1: upload data into R and reformat for WGCNA (This is all run under the R console)
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names(datExpr)[moduleColors=="brown”]