Mercurial > repos > jjohnson > rsem
view extract_transcript_to_gene_map_from_trinity.xml @ 2:5949673f9e3e
rename test data RSEM_ref_reference.rsem_ref
author | Jim Johnson <jj@umn.edu> |
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date | Fri, 07 Feb 2014 07:34:29 -0600 |
parents | ca988deacfd1 |
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<tool id="extract_transcript_to_gene_map_from_trinity" name="RSEM trinity fasta to gene map" version="1.1.17"> <description>extract transcript to gene map from trinity</description> <requirements> <requirement type="package" version="1.1.17">rsem</requirement> </requirements> <command> extract-transcript-to-gene-map-from-trinity $trinity_fasta_file $map_file </command> <inputs> <param name="trinity_fasta_file" type="data" format="fasta" label="Trinity fasta file" /> </inputs> <stdio> <exit_code range="1:" level="fatal" description="Error Running RSEM" /> </stdio> <outputs> <data format="tabular" name="map_file" label="${tool.name} on ${on_string}: gene map file"/> </outputs> <tests> <test> <param name="trinity_fasta_file" value="trinity_assembled_transcripts.fasta" ftype="fasta"/> <output name="map_file" file="trinity_gene_map.tabular"/> </test> </tests> <help> RSEM HOME PAGE - http://deweylab.biostat.wisc.edu/rsem/ NAME extract-transcript-to-gene-map-from-trinity SYNOPSIS extract-transcript-to-gene-map-from-trinity trinity_fasta_file map_file DESCRIPTION generates a gene_mp_file from a trinity fasta file </help> </tool>