HMCan
NOTE: spaces are not allowed.
Maximum distance to merge single peaks into a region.This parameter should be set with respect to the nature of the mark; narrow marks (e.g H3K4me1, H3K4me3) can cover 200bp-2Kb, wide marks (e.g. H3K36me3, H3K27me3) can cover 10Kb-100Kb.
An example of such a bed file for hg19 can be found here: http://xfer.curie.fr/get/GaQHuEopJTw/hg19-blacklist.bed

What it does

HMCan detects histone modifications in cancer samples.

Cite HMCan

If you use this tool, please cite : HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data.Haitham Ashoor; Aurelie Herault; Aurelie Kamoun; Francois Radvanyi; Vladimir B. Bajic; Emmanuel Barillot; Valentina Boeva.Bioinformatics 2013; doi: 10.1093/bioinformatics/btt524