Mercurial > repos > mingchen0919 > aurora_htseq

diff htseq_count.sh @ 2:db9da9716914 draft

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add r-dt
author mingchen0919
date Wed, 07 Mar 2018 00:12:55 -0500
parents cc33706a1d4b
children 0fdb0d5f53ce
line wrap: on
line diff
--- a/htseq_count.sh	Tue Mar 06 17:38:58 2018 -0500
+++ b/htseq_count.sh	Wed Mar 07 00:12:55 2018 -0500
@@ -1,4 +1,4 @@
-Rscript '${__tool_directory__}/aurora_htseq_count.R'
+Rscript '${__tool_directory__}/htseq_count_render.R'
 
 			-e $echo
 			-o $report
@@ -6,11 +6,14 @@
 			-s $sink_message
 			-t '${__tool_directory__}'
 			
+			-A '$alignment_files'
+			-B '$sample_names'
+			-G $gff
 			-f $format
 			-r $order
 			-S $stranded
 			-a $minaqual
 			-T $feature_type
 			-i $idattr
-			-I $additional_attr
-			-m $mode
\ No newline at end of file
+			-m $mode
+			-c $count
\ No newline at end of file