Mercurial > repos > erasmus-medical-center > dr_disco
comparison 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 |
---|---|
date | Wed, 25 Jan 2017 08:06:06 -0500 |
parents | |
children |
comparison
equal
deleted
inserted
replaced
-1:000000000000 | 0:fca9c1ace23c |
---|---|
1 <tool id="dr_disco_intronic" name="Dr. Disco (intronic)" version="@TOOL_VERSION@-g0"> | |
2 <description>Detects break-points in RNA-seq</description> | |
3 <macros> | |
4 <import>macros.xml</import> | |
5 </macros> | |
6 | |
7 <expand macro="requirements"/> | |
8 <expand macro="version_command"/> | |
9 | |
10 <command><![CDATA[ | |
11 ## old thing that evolved as such - depending on what the future will bring leave it out or include it... | |
12 touch empty.txt && | |
13 | |
14 dr-disco | |
15 intronic | |
16 -m '${min_e_score}' | |
17 '${output}' | |
18 empty.txt | |
19 '${star_discordant_alignment_fixed}' | |
20 ]]></command> | |
21 <inputs> | |
22 <param name="star_discordant_alignment_fixed" type="data" format="bam" label="Discordant alignment file of STAR (processed with dr-disco fix)" /> | |
23 <param name="min_e_score" type="integer" value="8" min="0" | |
24 label="Minimal score to initiate pulling sub-graphs" | |
25 help="Larger numbers boost performance but result in suboptimal results. Values of 8 and below are considered to be very safe (this corresponds to initiate merging already from clusters that consist of 2 or 3 reads)." /> | |
26 </inputs> | |
27 | |
28 <outputs> | |
29 <data name="output" format="tabular" label="${tool.name} on ${$star_discordant_alignment_fixed.name}" /> | |
30 </outputs> | |
31 | |
32 <tests> | |
33 </tests> | |
34 | |
35 <help> | |
36 </help> | |
37 | |
38 <expand macro="citations"/> | |
39 </tool> |