Mercurial > repos > yating-l > jbrowsearchivecreator
annotate bigGenePred.as @ 18:79b23a8afb15 draft
planemo upload for repository https://github.com/goeckslab/jbrowse-archive-creator.git commit 398c2fd8d1cb38decddf8cd58574cf39b1b52eaa
author | yating-l |
---|---|
date | Fri, 20 Jul 2018 12:25:36 -0400 |
parents | 237707a6b74d |
children |
rev | line source |
---|---|
6
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
1 table bigGenePred |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
2 "bigGenePred gene models" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
3 ( |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
4 string chrom; "Reference sequence chromosome or scaffold" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
5 uint chromStart; "Start position in chromosome" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
6 uint chromEnd; "End position in chromosome" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
7 string name; "Name or ID of item, ideally both human readable and unique" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
8 uint score; "Score (0-1000)" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
9 char[1] strand; "+ or - for strand" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
10 uint thickStart; "Start of where display should be thick (start codon)" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
11 uint thickEnd; "End of where display should be thick (stop codon)" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
12 uint reserved; "RGB value (use R,G,B string in input file)" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
13 int blockCount; "Number of blocks" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
14 int[blockCount] blockSizes; "Comma separated list of block sizes" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
15 int[blockCount] chromStarts; "Start positions relative to chromStart" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
16 string name2; "Alternative/human readable name" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
17 string cdsStartStat; "Status of CDS start annotation (none, unknown, incomplete, or complete)" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
18 string cdsEndStat; "Status of CDS end annotation (none, unknown, incomplete, or complete)" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
19 int[blockCount] exonFrames; "Exon frame {0,1,2}, or -1 if no frame for exon" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
20 string type; "Transcript type" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
21 string geneName; "Primary identifier for gene" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
22 string geneName2; "Alternative/human readable gene name" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
23 string geneType; "Gene type" |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
24 ) |
237707a6b74d
planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit a500f7ab2119cc5faaf80393bd87428389d06880-dirty
yating-l
parents:
diff
changeset
|
25 |