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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 (3.19)

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 "4.4") 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

Reference Manual PDF

Details

biocViews HiC, Normalization, Preprocessing, Software
Version 1.25.1
In Bioconductor since BioC 3.6 (R-3.4) (6.5 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, HiCBricks
System Requirements
URL https://github.com/hansenlab/bnbc
Bug Reports https://github.com/hansenlab/bnbc/issues
See More
Suggests BiocStyle, knitr, rmarkdown, RUnit, BSgenome.Hsapiens.UCSC.hg19
Linking To Rcpp
Enhances
Depends On Me
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Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64) bnbc_1.25.1.tgz
macOS Binary (arm64)
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/
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