DESCRIPTION

Package: diffHic
Version: 1.39.1
Date: 2024-12-16
Title: Differential Analysis of Hi-C Data
Author: Aaron Lun, Gordon Smyth
Maintainer: Aaron Lun <infinite.monkeys.with.keyboards@gmail.com>, Gordon Smyth <smyth@wehi.edu.au>, Hannah Coughlin <coughlin.h@wehi.edu.au>
Depends: R (>= 3.5), GenomicRanges, InteractionSet, SummarizedExperiment
Imports: Rsamtools, Rhtslib, Biostrings, BSgenome, rhdf5, edgeR, limma, csaw,
        locfit, methods, IRanges, S4Vectors, GenomeInfoDb, BiocGenerics,
        grDevices, graphics, stats, utils, Rcpp, rtracklayer
Suggests: BSgenome.Ecoli.NCBI.20080805, Matrix, testthat
biocViews: MultipleComparison, Preprocessing, Sequencing, Coverage,
        Alignment, Normalization, Clustering, HiC
Description: Detects differential interactions across biological
        conditions in a Hi-C experiment. Methods are provided for read
        alignment and data pre-processing into interaction counts.
        Statistical analysis is based on edgeR and supports
        normalization and filtering. Several visualization options are
        also available.
License: GPL-3
NeedsCompilation: yes
LinkingTo: Rhtslib (>= 1.13.1), Rcpp
SystemRequirements: C++, GNU make