Mercurial > repos > fubar > rnastar_2_3_0e

diff prepStar.sh @ 5:2700820cbec1 draft default tip

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author fubar
date Fri, 09 Aug 2013 04:30:15 -0400
parents 7ec5dfde90a3
children
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/prepStar.sh	Fri Aug 09 04:30:15 2013 -0400
@@ -0,0 +1,12 @@
+# automate their generation f
+# from existing fasta genomes
+INDEXROOT=/data/ucsc
+# fix that
+for genome in hg19 hg18 mm9 mm10 rn4 rn5
+do
+  TARGET=${INDEXROOT}/${genome}/rnastar
+  mkdir -p $TARGET
+  cd $TARGET
+  STAR --runMode genomeGenerate --genomeDir $TARGET --genomeFastaFiles ${TARGET}/$genome.fa --runThreadN 4
+done
+