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bnbc

This is the development version of bnbc; for the stable release version, see bnbc.

Bandwise normalization and batch correction of Hi-C data

Bioconductor version: Development (3.18)

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>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

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

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

Details

biocViews HiC, Normalization, Preprocessing, Software
Version 1.23.0
In Bioconductor since BioC 3.6 (R-3.4) (6 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
Linking To Rcpp
Suggests BiocStyle, knitr, rmarkdown, RUnit
System Requirements
Enhances
URL https://github.com/hansenlab/bnbc
Bug Reports https://github.com/hansenlab/bnbc/issues
See More
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_1.23.0.tar.gz
Windows Binary bnbc_1.23.0.zip
macOS Binary (x86_64) bnbc_1.23.0.tgz
macOS Binary (arm64) bnbc_1.23.0.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