idr2d: Irreproducible Discovery Rate for Genomic Interactions Data

A tool to measure reproducibility between genomic experiments that produce two-dimensional peaks (interactions between peaks), such as ChIA-PET, HiChIP, and HiC. idr2d is an extension of the original idr package, which is intended for (one-dimensional) ChIP-seq peaks.

README.md Identify reproducible genomic interactions from replicate ChIA-PET experiments Identify reproducible genomic peaks from replicate ChIP-seq experiments

Vignettes Man pages API and functions Files

Package details
Author	Konstantin Krismer [aut, cre, cph] (<https://orcid.org/0000-0001-8994-3416>), David Gifford [ths, cph] (<https://orcid.org/0000-0003-1709-4034>)
Bioconductor views	Classification DNA3DStructure Epigenetics FunctionalGenomics GeneRegulation HiC PeakDetection
Maintainer	Konstantin Krismer <krismer@mit.edu>
License	MIT + file LICENSE
Version	1.4.0
URL	https://idr2d.mit.edu
Package repository	View on Bioconductor
Installation	Install the latest version of this package by entering the following in R: `if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("idr2d")`