Mercurial > repos > vipints > deseq_hts
comparison deseq-hts_1.0/galaxy/deseq.xml @ 1:8ab01cc29c4b draft
Uploaded
| author | vipints |
|---|---|
| date | Wed, 27 Jun 2012 15:35:11 -0400 |
| parents | 94a108763d9e |
| children | e27b4f7811c2 |
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| 0:94a108763d9e | 1:8ab01cc29c4b |
|---|---|
| 1 <tool id="deseq-hts" name="DESeq" version="1.6.0"> | 1 <tool id="deseq-hts" name="DESeq" version="1.6.1"> |
| 2 <description>Determines differentially expressed transcripts from read alignments</description> | 2 <description>Determines differentially expressed transcripts from read alignments</description> |
| 3 <command> | 3 <command> |
| 4 deseq-hts/src/deseq-hts.sh $anno_input_selected $deseq_out $deseq_out.extra_files_path/gene_map.mat | 4 deseq-hts/src/deseq-hts.sh $anno_input_selected $deseq_out $deseq_out.extra_files_path/gene_map.mat |
| 5 #for $i in $replicate_groups | 5 #for $i in $replicate_groups |
| 6 #for $j in $i.replicates | 6 #for $j in $i.replicates |
| 7 $j.bam_alignment:#slurp | 7 $j.bam_alignment:#slurp |
| 8 #end for | 8 #end for |
| 9 | |
| 9 #end for | 10 #end for |
| 10 >> $Log_File </command> | 11 >> $Log_File </command> |
| 11 <inputs> | 12 <inputs> |
| 12 <param format="gff3" name="anno_input_selected" type="data" label="Genome annotation in GFF3 file" help="A tab delimited format for storing sequence features and annotations"/> | 13 <param format="gff3" name="anno_input_selected" type="data" label="Genome annotation in GFF3 file" help="A tab delimited format for storing sequence features and annotations"/> |
| 13 <repeat name="replicate_groups" title="Replicate group" min="2"> | 14 <repeat name="replicate_groups" title="Replicate group" min="2"> |