HiCExperiment (development version) (original) (raw)

This is the development version of HiCExperiment; for the stable release version, seeHiCExperiment.

Bioconductor class for interacting with Hi-C files in R

Bioconductor version: Development (3.21)

R generic interface to Hi-C contact matrices in `.(m)cool`, `.hic` or HiC-Pro derived formats, as well as other Hi-C processed file formats. Contact matrices can be partially parsed using a random access method, allowing a memory-efficient representation of Hi-C data in R. The `HiCExperiment` class stores the Hi-C contacts parsed from local contact matrix files. `HiCExperiment` instances can be further investigated in R using the `HiContacts` analysis package.

Author: Jacques Serizay [aut, cre] (ORCID: )

Maintainer: Jacques Serizay

Citation (from within R, enter citation("HiCExperiment")):

Installation

To install this package, start R (version "4.5") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("HiCExperiment")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("HiCExperiment")

Details

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Package Archives

Follow Installation instructions to use this package in your R session.