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comparison macros.xml @ 1:c2689aeefa3a draft default tip

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"planemo upload for repository https://github.com/jj-umn/galaxytools/tree/master/rmats commit 315f6ba609e9545c3a374f7fd471aee50b135ec8-dirty"
author jjohnson
date Sat, 23 Jul 2022 19:44:13 +0000
parents 82fde491fe91
children
comparison
equal deleted inserted replaced
0:82fde491fe91 1:c2689aeefa3a
18 </xml> 18 </xml>
19 <xml name="version_command"> 19 <xml name="version_command">
20 <version_command>rmats.py --version</version_command> 20 <version_command>rmats.py --version</version_command>
21 </xml> 21 </xml>
22 22
23 <token name="COLNAMES_SUMMARY">EventType,TotalEventsJC,TotalEventsJCEC,SignificantEventsJC,SigEventsJCSample1HigherInclusion,SigEventsJCSample2HigherInclusion,SignificantEventsJCEC,SigEventsJCECSample1HigherInclusion,SigEventsJCECSample2HigherInclusion</token> 23 <token name="@COLNAMES_SUMMARY@">EventType,TotalEventsJC,TotalEventsJCEC,SignificantEventsJC,SigEventsJCSample1HigherInclusion,SigEventsJCSample2HigherInclusion,SignificantEventsJCEC,SigEventsJCECSample1HigherInclusion,SigEventsJCECSample2HigherInclusion</token>
24 <token name="SHAREDCOLS">ID,GeneID,geneSymbol,chr,strand</token> 24 <token name="@SHAREDCOLS@">ID,GeneID,geneSymbol,chr,strand</token>
25 <token name="MXECOLS">1stExonStart_0base,1stExonEnd,2ndExonStart_0base,2ndExonEnd,upstreamES,upstreamEE,downstreamES,downstreamEE</token> 25 <token name="@MXECOLS@">1stExonStart_0base,1stExonEnd,2ndExonStart_0base,2ndExonEnd,upstreamES,upstreamEE,downstreamES,downstreamEE</token>
26 <token name="SECOLS">exonStart_0base,exonEnd,upstreamES,upstreamEE,downstreamES,downstreamEE</token> 26 <token name="@SECOLS@">exonStart_0base,exonEnd,upstreamES,upstreamEE,downstreamES,downstreamEE</token>
27 <token name="ACOLS">longExonStart_0base,longExonEnd,shortES,shortEE,flankingES,flankingEE</token> 27 <token name="@ACOLS@">longExonStart_0base,longExonEnd,shortES,shortEE,flankingES,flankingEE</token>
28 <token name="RICOLS">riExonStart_0base,riExonEnd,upstreamES,upstreamEE,downstreamES,downstreamEE</token> 28 <token name="@RICOLS@">riExonStart_0base,riExonEnd,upstreamES,upstreamEE,downstreamES,downstreamEE</token>
29 <token name="CNTCOLS">ID,IJC_SAMPLE_1,SJC_SAMPLE_1,IJC_SAMPLE_2,SJC_SAMPLE_2,IncFormLen,SkipFormLen</token> 29 <token name="@CNTCOLS@">ID,IJC_SAMPLE_1,SJC_SAMPLE_1,IJC_SAMPLE_2,SJC_SAMPLE_2,IncFormLen,SkipFormLen</token>
30 <token name="STATCOLS">PValue,FDR,IncLevel1,IncLevel2,IncLevelDifference</token> 30 <token name="@STATCOLS@">PValue,FDR,IncLevel1,IncLevel2,IncLevelDifference</token>
31 <token name="SAMPLECOLS">@CNTCOLS@,@STATCOLS@</token> 31 <token name="@SAMPLECOLS@">@CNTCOLS@,@STATCOLS@</token>
32 <token name="COLNAMES_MXE_GTF">@SHAREDCOLS@,@MXECOLS@</token> 32 <token name="@COLNAMES_MXE_GTF@">@SHAREDCOLS@,@MXECOLS@</token>
33 <token name="COLNAMES_MXE">@SHAREDCOLS@,@MXECOLS@,@SAMPLECOLS@</token> 33 <token name="@COLNAMES_MXE@">@SHAREDCOLS@,@MXECOLS@,@SAMPLECOLS@</token>
34 <token name="COLNAMES_SE_GTF">@SHAREDCOLS@,@SECOLS@</token> 34 <token name="@COLNAMES_SE_GTF@">@SHAREDCOLS@,@SECOLS@</token>
35 <token name="COLNAMES_SE">@SHAREDCOLS@,@SECOLS@,@SAMPLECOLS@</token> 35 <token name="@COLNAMES_SE@">@SHAREDCOLS@,@SECOLS@,@SAMPLECOLS@</token>
36 <token name="COLNAMES_A_SS_GTF">@SHAREDCOLS@,@ACOLS@</token> 36 <token name="@COLNAMES_A_SS_GTF@">@SHAREDCOLS@,@ACOLS@</token>
37 <token name="COLNAMES_A_SS">@SHAREDCOLS@,@ACOLS@,@SAMPLECOLS@</token> 37 <token name="@COLNAMES_A_SS@">@SHAREDCOLS@,@ACOLS@,@SAMPLECOLS@</token>
38 <token name="COLNAMES_RI_GTF">@SHAREDCOLS@,@RICOLS@</token> 38 <token name="@COLNAMES_RI_GTF@">@SHAREDCOLS@,@RICOLS@</token>
39 <token name="COLNAMES_RI">@SHAREDCOLS@,@RICOLS@,@SAMPLECOLS@</token> 39 <token name="@COLNAMES_RI@">@SHAREDCOLS@,@RICOLS@,@SAMPLECOLS@</token>
40 40
41 <xml name="output_actions" token_column_names="@COLNAME_SUMMARY@"> 41 <xml name="output_actions" token_column_names="@COLNAME_SUMMARY@">
42 <actions> 42 <actions>
43 <action name="comment_lines" type="metadata" default="1" /> 43 <action name="comment_lines" type="metadata" default="1" />
44 <action name="column_names" type="metadata" default="@COLUMN_NAMES@" /> 44 <action name="column_names" type="metadata" default="@COLUMN_NAMES@" />