Question: Can I input peak files from Genrich as input reads in DiffBind?
0
gravatar for gsenevirathne
5 months ago by
gsenevirathne0 wrote:

Hi,

I have been running Genrich (similar to MACS2) as way of calling peaks for my ATAC-seq analysis. My output files from the Genrich are .log and .narroPeak files. Can I use the peak files in DiffBind?

Thanks!

Gayani

diffbind genrich • 221 views
ADD COMMENTlink modified 4 months ago by Rory Stark2.8k • written 5 months ago by gsenevirathne0
Answer: Can I input peak files from Genrich as input reads in DiffBind?
1
gravatar for Rory Stark
4 months ago by
Rory Stark2.8k
CRUK, Cambridge, UK
Rory Stark2.8k wrote:

Yes, this should work with the .narrowPeak files. In the sample sheet, the values in the PeakCaller column should be set to "narrow".

ADD COMMENTlink written 4 months ago by Rory Stark2.8k

Thank you for the quick response! It worked.

ADD REPLYlink written 4 months ago by gsenevirathne0
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