Question: Does bedtools intersect output overlaps with isoforms?
0
kmkdesilva • 90 wrote:
Hi
I am using bedtools intersect option to identify which regions in my file are overlapping with exons. One thing I am curious about, is if a gene has 5 isoforms with an exon common to each, does bedtools return all 5 for the overlap, or just 1?
ADD COMMENT
• link
•
modified 4 months ago
by
Kevin Blighe ♦ 69k
•
written
4 months ago by
kmkdesilva • 90
You do not give any details on your input files (format). But in general bedtools returns all overlaps, yes.
Sorry, my inputs are in bed file format. Thank you