Mercurial > repos > devteam > cuffcompare

comparison cuffcompare_wrapper.xml @ 7:b77178f66fc3 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/cufflinks/cuffcompare commit a1517c9d22029095120643bbe2c8fa53754dd2b7
author devteam
date Wed, 11 Nov 2015 12:34:16 -0500
parents 8e534225baa9
children 1322b73ffe44
comparison
equal deleted inserted replaced
6:8e534225baa9 7:b77178f66fc3
223 --------------------------------- 223 ---------------------------------
224 1 = Match 224 1 = Match
225 2 c Contained 225 2 c Contained
226 3 j New isoform 226 3 j New isoform
227 4 e A single exon transcript overlapping a reference exon and at least 10 bp of a reference intron, indicating a possible pre-mRNA fragment. 227 4 e A single exon transcript overlapping a reference exon and at least 10 bp of a reference intron, indicating a possible pre-mRNA fragment.
228 5 i A single exon transcript falling entirely with a reference intron 228 5 i A single exon transcript falling entirely with a reference intron
229 6 r Repeat. Currently determined by looking at the reference sequence and applied to transcripts where at least 50% of the bases are lower case 229 6 o Generic exonic overlap with a reference transcript
230 7 p Possible polymerase run-on fragment 230 7 p Possible polymerase run-on fragment
231 8 u Unknown, intergenic transcript 231 8 r Repeat. Currently determined by looking at the soft-masked reference sequence and applied to transcripts where at least 50% of the bases are lower case
232 9 o Unknown, generic overlap with reference 232 9 u Unknown, intergenic transcript
233 10 . (.tracking file only, indicates multiple classifications) 233 10 x Exonic overlap with reference on the opposite strand
234 11 s An intron of the transfrag overlaps a reference intron on the opposite strand (likely due to read mapping errors)
235 12 . (.tracking file only, indicates multiple classifications)
234 236
235 ------- 237 -------
236 238
237 **Settings** 239 **Settings**
238 240