EpiCSeg (Epigenome Count-based Segmentation) is a software for annotating the genome based on the state of the chromatin. It provides tools for extracting count data from BAM files, typlically corresponding to ChIP-seq experiments for histone marks (but other choices are possible) it learns a statistical model for the read counts based on a HMM, it annotates the genome, and it provides tools for displaying and analyzing the obtained models and segmentations. EpiCSeg can be used as an R package or from the command line via Rscript.
Package details |
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Author | Alessandro Mammana |
Maintainer | Alessandro Mammana <mammana@molgen.mpg.de> |
License | GPL-3 |
Version | 1.0 |
Package repository | View on GitHub |
Installation |
Install the latest version of this package by entering the following in R:
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