SEQanswers - View Single Post - extract alignment from SAM with a GFF file

NicoBxl · 08-02-2011, 01:15 AM

is this bedtools command correct ?

intersectBed -abam alignment.bam -b coordinates.gff > alignment_filtered.bam

Thanks,

N.

EDIT > I found it : intersectBed -abam alignment.bam -b coordinates.gff -wa > alignment_filtered.bam

08-02-2011, 01:15 AM	#4
NicoBxl not just another member Location: Belgium Join Date: Aug 2010 Posts: 264	is this bedtools command correct ? intersectBed -abam alignment.bam -b coordinates.gff > alignment_filtered.bam Thanks, N. EDIT > I found it : intersectBed -abam alignment.bam -b coordinates.gff -wa > alignment_filtered.bam Last edited by NicoBxl; 08-02-2011 at 05:47 AM.