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comparison gffcompare.xml @ 5:46eaf3b078de draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
author iuc
date Tue, 31 Aug 2021 08:29:34 +0000
parents 7eeb9fba4858
children 9e282a956012
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4:7eeb9fba4858 5:46eaf3b078de
1 <tool id="gffcompare" name="GffCompare" version="@GFFCOMPARE_VERSION@"> 1 <tool id="gffcompare" name="GffCompare" version="@GFFCOMPARE_VERSION@">
2 <description>compare assembled transcripts to a reference annotation</description> 2 <description>compare assembled transcripts to a reference annotation</description>
3 <xrefs>
4 <xref type="bio.tools">gffcompare</xref>
5 </xrefs>
3 <macros> 6 <macros>
4 <token name="@GFFCOMPARE_VERSION@">0.11.2</token> 7 <token name="@GFFCOMPARE_VERSION@">0.11.2</token>
5 </macros> 8 </macros>
6 <requirements> 9 <requirements>
7 <requirement type="package" version="@GFFCOMPARE_VERSION@">gffcompare</requirement> 10 <requirement type="package" version="@GFFCOMPARE_VERSION@">gffcompare</requirement>
476 * compare and evaluate the accuracy of RNA-Seq transcript assemblers (Cufflinks, Stringtie). 479 * compare and evaluate the accuracy of RNA-Seq transcript assemblers (Cufflinks, Stringtie).
477 * collapse (merge) duplicate transcripts from multiple GTF/GFF3 files (e.g. resulted from assembly of different samples) 480 * collapse (merge) duplicate transcripts from multiple GTF/GFF3 files (e.g. resulted from assembly of different samples)
478 * classify transcripts from one or multiple GTF/GFF3 files as they relate to reference transcripts provided in a 481 * classify transcripts from one or multiple GTF/GFF3 files as they relate to reference transcripts provided in a
479 annotation file (also in GTF/GFF3 format) 482 annotation file (also in GTF/GFF3 format)
480 483
481 More information can be found here: https://ccb.jhu.edu/software/stringtie/gffcompare.shtml. 484 More information can be found here: https://ccb.jhu.edu/software/stringtie/gffcompare.shtml
482 485
483 The original form of this program is also distributed as part of the Cufflinks suite, under the name "CuffCompare" 486 The original form of this program is also distributed as part of the Cufflinks suite, under the name "CuffCompare"
484 (see manual: http://cole-trapnell-lab.github.io/cufflinks/cuffcompare/). Most of the options and parameters of CuffCompare 487 (see manual: http://cole-trapnell-lab.github.io/cufflinks/cuffcompare/). Most of the options and parameters of CuffCompare
485 are supported by GffCompare, while new features will likely be added to GffCompare in the future. 488 are supported by GffCompare, while new features will likely be added to GffCompare in the future.
486 489