lamortenera/epicseg: Chromatin Segmentation in R

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.

Getting started

Package details

AuthorAlessandro Mammana
MaintainerAlessandro Mammana <[email protected]>
LicenseGPL-3
Version1.0
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("lamortenera/epicseg")
lamortenera/epicseg documentation built on July 17, 2017, 1:25 a.m.