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view SMART/DiffExpAnal/testR.sh @ 18:94ab73e8a190

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author m-zytnicki
date Mon, 29 Apr 2013 03:20:15 -0400
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#! /bin/sh

#cat testR.R | R --slave --args $1 $2 $3 $4 $5 $6 < DiffExpAnal/testR.R

#ex1. sh testR.sh fly_RNA_counts.tsv 0 1,3 2,4 output_fly.csv output_fly.png
#ex2. sh testR.sh NeuralStemCellData.tab 1 2,3,4 5,6 output_modif.csv output_modif.png

#cat /share/apps/galaxy-dist/tools/repet_pipe/SMART/DiffExpAnal/testR.R | R --slave --args $1 $2 $3 $4 $5 $6 < /share/apps/galaxy-dist/tools/repet_pipe/SMART/DiffExpAnal/testR.R

#$1=targetFile(the list of files) $2=with or without replicate
cat /share/apps/galaxy-dist/tools/repet_pipe/SMART/DiffExpAnal/DESeqTools/anadiffGenes2conds.R| R --slave --args $1 $2 < /share/apps/galaxy-dist/tools/repet_pipe/SMART/DiffExpAnal/DESeqTools/anadiffGenes2conds.R