Mercurial > repos > erasmus-medical-center > dr_disco
view dr-disco_intronic.xml @ 0:fca9c1ace23c draft
planemo upload for repository https://github.com/ErasmusMC-Bioinformatics/galaxytools-emc/tree/master/tools/dr-disco commit a6e0161a14202e3fc166b3cf8ecbafed54ec403a
author | erasmus-medical-center |
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date | Wed, 25 Jan 2017 08:06:06 -0500 |
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<tool id="dr_disco_intronic" name="Dr. Disco (intronic)" version="@TOOL_VERSION@-g0"> <description>Detects break-points in RNA-seq</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements"/> <expand macro="version_command"/> <command><![CDATA[ ## old thing that evolved as such - depending on what the future will bring leave it out or include it... touch empty.txt && dr-disco intronic -m '${min_e_score}' '${output}' empty.txt '${star_discordant_alignment_fixed}' ]]></command> <inputs> <param name="star_discordant_alignment_fixed" type="data" format="bam" label="Discordant alignment file of STAR (processed with dr-disco fix)" /> <param name="min_e_score" type="integer" value="8" min="0" label="Minimal score to initiate pulling sub-graphs" help="Larger numbers boost performance but result in suboptimal results. Values of 8 and below are considered to be very safe (this corresponds to initiate merging already from clusters that consist of 2 or 3 reads)." /> </inputs> <outputs> <data name="output" format="tabular" label="${tool.name} on ${$star_discordant_alignment_fixed.name}" /> </outputs> <tests> </tests> <help> </help> <expand macro="citations"/> </tool>