bnbc
Bandwise normalization and batch correction of Hi-C data
Bioconductor version: Release (3.20)
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 | 1.28.0 |
| 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_1.28.0.tar.gz |
| Windows Binary (x86_64) | bnbc_1.28.0.zip (64-bit only) |
| macOS Binary (x86_64) | bnbc_1.28.0.tgz |
| macOS Binary (arm64) | bnbc_1.28.0.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 |