Question: Display Bed In Igv
gravatar for camelbbs
6.8 years ago by
camelbbs660 wrote:

Hi all,

Happy new year.

Here I want to ask a question about how to show bed files in IGV.

My bed file is like this:

chr1    34611   35174   uc001aak.1  2.2      -
chr1    35277   35481   uc001aak.2  1.5       -
chr1    35721   36081   uc001aak.3  0.5       -
chr1    69091   70008   uc001aal.1  0.9       +

The 5th column is the pileup.

Anybody know how to display this kind of bed file in IGV to show the pileup level? Thanks a lot.

igv • 3.0k views
ADD COMMENTlink modified 5.7 years ago by Biostar ♦♦ 20 • written 6.8 years ago by camelbbs660
gravatar for sah9b
6.8 years ago by
United States
sah9b100 wrote:

You probably want to turn it into a bedGraph file. That is, remove the UCSC IDs and strand information so your file has 4 fields: chr, start, end, and pileup level.

ADD COMMENTlink written 6.8 years ago by sah9b100

Thanks a lot!...

ADD REPLYlink written 6.8 years ago by camelbbs660
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 763 users visited in the last hour