Visualization of chromosomal locations

Question

[sagardesai91]

I need a tool to visualize multiple (approx 6000) chromosomal locations on an ideogram. They are in the form of bed file

Eg:

chr1 startpos endpos

Is there a tool to do this?

Answer 1

[igor]

You can use a genome browser for that. Most will accept a BED file. IGV (Java app) and UCSC Genome Browser (web-based) are probably most popular, but it really depends on your field. There is a very comprehensive list available here.

Answer 2

[Dan D]

Integrative Genomics Viewer can load BED files and overlay the intervals on the genome of your choice.

[sagardesai91]

Thanks alot Dan!