Mercurial > repos > yating-l > jbrowsearchivecreator

comparison bigGenePred.as @ 6:237707a6b74d draft

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planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
author yating-l
date Thu, 15 Feb 2018 17:05:05 -0500
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5:e762f4b9e4bd 6:237707a6b74d
1 table bigGenePred
2 "bigGenePred gene models"
3 (
4 string chrom; "Reference sequence chromosome or scaffold"
5 uint chromStart; "Start position in chromosome"
6 uint chromEnd; "End position in chromosome"
7 string name; "Name or ID of item, ideally both human readable and unique"
8 uint score; "Score (0-1000)"
9 char[1] strand; "+ or - for strand"
10 uint thickStart; "Start of where display should be thick (start codon)"
11 uint thickEnd; "End of where display should be thick (stop codon)"
12 uint reserved; "RGB value (use R,G,B string in input file)"
13 int blockCount; "Number of blocks"
14 int[blockCount] blockSizes; "Comma separated list of block sizes"
15 int[blockCount] chromStarts; "Start positions relative to chromStart"
16 string name2; "Alternative/human readable name"
17 string cdsStartStat; "Status of CDS start annotation (none, unknown, incomplete, or complete)"
18 string cdsEndStat; "Status of CDS end annotation (none, unknown, incomplete, or complete)"
19 int[blockCount] exonFrames; "Exon frame {0,1,2}, or -1 if no frame for exon"
20 string type; "Transcript type"
21 string geneName; "Primary identifier for gene"
22 string geneName2; "Alternative/human readable gene name"
23 string geneType; "Gene type"
24 )
25