bnbc

DOI: 10.18129/B9.bioc.bnbc    

Bandwise normalization and batch correction of Hi-C data

Bioconductor version: Release (3.11)

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 "4.0") and enter:

if (!requireNamespace("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 1.10.0
In Bioconductor since BioC 3.6 (R-3.4) (3 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_1.10.0.tar.gz
Windows Binary bnbc_1.10.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) bnbc_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/bnbc
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/bnbc
Package Short Url https://bioconductor.org/packages/bnbc/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.11 Source Archive

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: