File: variants.gff

package info (click to toggle)
python-pbcore 1.6.5%2Bdfsg-1
  • links: PTS, VCS
  • area: main
  • in suites: buster
  • size: 19,168 kB
  • sloc: python: 25,497; xml: 2,846; makefile: 251; sh: 24
file content (11 lines) | stat: -rw-r--r-- 821 bytes parent folder | download | duplicates (6) 
1
2
3
4
5
6
7
8
9
10
11
 
##gff-version 3
##pacbio-variant-version 2.1
##date Sat Mar 22 12:16:13 2014
##feature-ontology http://song.cvs.sourceforge.net/*checkout*/song/ontology/sofa.obo?revision=1.12
##source GenomicConsensus 0.8.0
##source-commandline /Users/dalexander/.virtualenvs/VE/bin/variantCaller.py --algorithm=plurality -q20 -x5 pbcore/data/aligned_reads_1.cmp.h5 -r /Users/dalexander/Data/lambdaNEB.fa -o /tmp/v.gff
##source-alignment-file /Users/dalexander/Dropbox/Sources/git/pbcore/pbcore/data/aligned_reads_1.cmp.h5
##source-reference-file /Users/dalexander/Data/lambdaNEB.fa
##sequence-region lambda_NEB3011 1 48502
lambda_NEB3011	.	deletion	30890	30890	.	.	.	reference=G;variantSeq=.;frequency=2;coverage=5;confidence=25
lambda_NEB3011	.	insertion	30924	30924	.	.	.	reference=.;variantSeq=G;frequency=2;coverage=5;confidence=25