bnbc
Bandwise normalization and batch correction of Hi-C data
Bioconductor version: Release (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")
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 | ||
NEWS | Text |
Details
biocViews | HiC, Normalization, Preprocessing, Software |
Version | 1.26.0 |
In Bioconductor since | BioC 3.6 (R-3.4) (7 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 | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | bnbc_1.26.0.tar.gz |
Windows Binary | bnbc_1.26.0.zip |
macOS Binary (x86_64) | bnbc_1.26.0.tgz |
macOS Binary (arm64) | bnbc_1.26.0.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 |