mervesa/HiCDCPlus: Hi-C Direct Caller Plus

Systematic 3D interaction calls and differential analysis for Hi-C and HiChIP. The HiC-DC+ (Hi-C/HiChIP direct caller plus) package enables principled statistical analysis of Hi-C and HiChIP data sets – including calling significant interactions within a single experiment and performing differential analysis between conditions given replicate experiments – to facilitate global integrative studies. HiC-DC+ estimates significant interactions in a Hi-C or HiChIP experiment directly from the raw contact matrix for each chromosome up to a specified genomic distance, binned by uniform genomic intervals or restriction enzyme fragments, by training a background model to account for random polymer ligation and systematic sources of read count variation.

Getting started

Package details

Bioconductor views DNA3DStructure HiC Normalization Software
Maintainer
LicenseGPL-3
Version0.99.14
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("mervesa/HiCDCPlus")
mervesa/HiCDCPlus documentation built on April 14, 2021, 9:13 p.m.