bedgraph file format in IGV: good for observing CNV ?

0

Entering edit mode

5.4 years ago

Pin.Bioinf ▴ 340

Hello,

I found here that I can use begraph format to observe CNV in IGV. Suposedly, I will be able to see overrepresentations and deletions, so I converted my (aligned reads) bam file to bedgraph and opened it on IGV.

My question is if what I am seeing is actually an overrepresentation, see image attached.

bedgraph file opened with IGV. An overrepresentation?

igv cnv bedgraph • 1.4k views

ADD COMMENT • link 5.4 years ago by Pin.Bioinf ▴ 340

1

Entering edit mode

How to add images to a Biostars post

ADD REPLY • link 5.4 years ago by WouterDeCoster 47k

0

Entering edit mode

how is it different from your previous question ? How can I tell if there is CNV for specific gene in IGV?

ADD REPLY • link 5.4 years ago by Pierre Lindenbaum 161k

0

Entering edit mode

Because I have found bedgraph format, and i am adding an image to see if i am on the correct path

ADD REPLY • link 5.4 years ago by Pin.Bioinf ▴ 340

Login before adding your answer.