Hi, I am trying to analyze ChIP seq data for a factor which do not behave as a typical transcription factor. When I am using MACS2 i hardly get any significant peaks. Around 20. And when I perform Homer I get 20000. I am not able to understand which peak caller to go for. Macs is not even picking up peaks which I can visually see in IGV. Can somebody help me to understand the reason behind it. I am using broad peak calling option. If I decide to go ahead with Homer then on what basis I should filter my peaks. I am planning correlated binding profile with transcriptome data further.
Question: Peak calling macs vs Homer
9 days ago by
saurabh.j.pradhan • 0 wrote:
ADD COMMENT • link •
Please log in to add an answer.
Powered by Biostar version 2.3.0
Traffic: 1448 users visited in the last hour