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Published 20 hours ago • verified publisher icon hbctraining

Genrich to Diffbind

Open LunaPatton opened this issue 3 years ago • 0 comments

Hi @cjfields Recently I ran my ATAC-seq data with Genrich which can implment joint-peak calling. Then I want to use narrowPeak file as input file for DiffBind to conduct differential peak analysis, while I noticed that DiffBind needs both bam and peak files. For my data, I have two replicates per group so that generated two bam files for each group with one peak file (which comes from Genrich). Does DiffBind must be reliant on MACS2? If not, how to deal with bam file to make them suit for DiffBind? Many thanks!

Zoe

LunaPatton avatar Dec 28 '21 03:12 LunaPatton