bnbc

Bandwise normalization and batch correction of Hi-C data

Bioconductor version: 3.23 · Package version: 1.34.0

Tools to normalize (several) Hi-C data from replicates.

Installation

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

BiocManager::install("bnbc")

Maintainer	Kipper Fletez-Brant <cafletezbrant@gmail.com>
Author	Kipper Fletez-Brant [cre, aut], Kasper Daniel Hansen [aut]
License	Artistic-2.0
URL	https://github.com/hansenlab/bnbc
Bug Reports	https://github.com/hansenlab/bnbc/issues
Downloads rank	354
Source branch	RELEASE_3_23
biocViews	HiC, Normalization, Preprocessing, Software

Dependencies

Depends: R (>= 3.5.0), methods, BiocGenerics, SummarizedExperiment, GenomicRanges

Imports: Rcpp (>= 0.12.12), IRanges, rhdf5, data.table, Seqinfo, S4Vectors, matrixStats, preprocessCore, sva, parallel, EBImage, utils

LinkingTo: Rcpp

Suggests: BiocStyle, knitr, rmarkdown, RUnit, BSgenome.Hsapiens.UCSC.hg19