QuestionsCategory: ChIP-Seq Data AnalysisPeak calling and analyses: What peak caller is good for broad peaks?
stonelakeak@nih.gov Staff asked 5 months ago

What peak caller is good for broad peaks?

1 Answers
stonelakeak@nih.gov Staff answered 5 months ago

I like Sicer for broad peaks. It needs to be tuned to a particular data set, but it handles large domains and high background better than most of the tools I have seen. – answered by Tovah Markowitz, Paul Schaughency, Vishal Koparde.