select set of intervals that cover a genomic region
0
0
Entering edit mode
27 days ago
ntsopoul ▴ 60

Hi,

I have a set of intervals as GRanges object or as bed file. (see picture attached, link to file below). As always .bed files or GRanges are sorted by start or end position, resulting in staggered intervals. However, I want a selection of intervals covering a region (see picture). How can I select the intervals marked in the picture and disregard the rest? I want to do it genome wide so a general approach would be helpful

enter image description here

Here is the bed file for a random gene (mm10 genome, gene nup160) https://www.dropbox.com/scl/fi/lqy7e7cbg8bz7onzx2cnf/selected_gr.bed.txt?rlkey=espilxfhlrll30t3f9rvuhlko&dl=0

GRanges bed • 168 views
ADD COMMENT

Login before adding your answer.

Traffic: 1550 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6