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Question: Overlapping/Intersecting Tracks in IGV
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gravatar for Dr.Abhijitbasu
2.7 years ago by
Dr.Abhijitbasu • 0
Dr.Abhijitbasu • 0 wrote:

Hello 

          How can i Overlapping/Intersecting Tracks in IGV. I have 2 peaks in seperate Bed files. For the sake of publication if i have to overlap (i guess to show differential binding in Chip-seq data) the peaks. how and which software can i do this. will the out be visible in IGV browser?

thanks

chip-seq • 1.2k views
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modified 2.7 years ago • written 2.7 years ago by Dr.Abhijitbasu • 0
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gravatar for Bjoern Gruening
2.7 years ago by
Bjoern Gruening ♦ 5.1k
Germany
Bjoern Gruening ♦ 5.1k wrote:

Hi,

I'm not sure I understand your question. If you would like to do differential binding site analysis you can use the tool diffbind. If you just want to display to separated peak file you can load both of them in IGV as different tracks.

Hope this helps, Bjoern
ADD COMMENT • link written 2.7 years ago by Bjoern Gruening ♦ 5.1k
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gravatar for Dr.Abhijitbasu
2.7 years ago by
Dr.Abhijitbasu • 0
Dr.Abhijitbasu • 0 wrote:

Dear Bjoern

                      Please have a look at this website  and let me know such kind of overlapp is possible with any tools from galaxy or not, or any that you know ?

http://imgur.com/Ld3Gru6

Best regards Basu
ADD COMMENT • link written 2.7 years ago by Dr.Abhijitbasu • 0
1

Yes it is. IGV can be used for most of the visualisation tasks, to produce the needed files you can use Galaxy tools.

ADD REPLY • link written 2.7 years ago by Bjoern Gruening ♦ 5.1k
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