Peak calling and analyses: What peak caller is good for broad peaks? Questions › Category: ChIP-Seq Data Analysis › Peak calling and analyses: What peak caller is good for broad peaks? 0 Vote Up Vote Down stonelakeak@nih.gov Staff asked 3 years ago What peak caller is good for broad peaks? 1 Answers 0 Vote Up Vote Down stonelakeak@nih.gov Staff answered 3 years 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. Please login to submit your answer Login