epic2 efficiently finds diffuse domains in ChIP-seq data.

Abstract

Data from chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIP-seq) generally contain either narrow peaks or broad and diffusely enriched domains. The SICER ChIP-seq caller has proven adept at finding diffuse domains in ChIP-seq data, but it is slow, requires much memory, needs manual installation steps and is hard to use. epic2 is a complete rewrite of SICER that is focused on speed, low memory overhead and ease-of-use. The MIT-licensed code is available at https://github.com/biocore-ntnu/epic2. Supplementary data are available at Bioinformatics online.