bnbc

DOI: 10.18129/B9.bioc.bnbc  

Bandwise normalization and batch correction of Hi-C data

Bioconductor version: Release (3.16)

Tools to normalize (several) Hi-C data from replicates.

Author: Kipper Fletez-Brant [cre, aut], Kasper Daniel Hansen [aut]

Maintainer: Kipper Fletez-Brant <cafletezbrant at gmail.com>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("bnbc")

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("bnbc")

 

HTML	R Script	bnbc User's Guide
PDF		Reference Manual
Text		NEWS

Details

biocViews	HiC, Normalization, Preprocessing, Software
Version	1.20.0
In Bioconductor since	BioC 3.6 (R-3.4) (5.5 years)
License	Artistic-2.0
Depends	R (>= 3.5.0), methods, BiocGenerics, SummarizedExperiment, GenomicRanges
Imports	Rcpp (>= 0.12.12), IRanges, rhdf5, data.table, GenomeInfoDb, S4Vectors, matrixStats, preprocessCore, sva, parallel, EBImage, utils
LinkingTo	Rcpp
Suggests	BiocStyle, knitr, rmarkdown, RUnit
SystemRequirements
Enhances
URL	https://github.com/hansenlab/bnbc
BugReports	https://github.com/hansenlab/bnbc/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	bnbc_1.20.0.tar.gz
Windows Binary	bnbc_1.20.0.zip (64-bit only)
macOS Binary (x86_64)	bnbc_1.20.0.tgz
macOS Binary (arm64)	bnbc_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/bnbc
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/bnbc
Bioc Package Browser	https://code.bioconductor.org/browse/bnbc/
Package Short Url	https://bioconductor.org/packages/bnbc/
Package Downloads Report	Download Stats