Package: DiffBind
Type: Package
Version: 3.12.0
Title: Differential Binding Analysis of ChIP-Seq Peak Data
Authors@R: c(person("Rory","Stark", email="bioconductor@starkhome.com",
                  role = c("aut", "cre")),
             person("Gord","Brown",email="DECEASED",
                  role="aut"))
Description: Compute differentially bound sites from multiple ChIP-seq
        experiments using affinity (quantitative) data. Also enables
        occupancy (overlap) analysis and plotting functions.
License: Artistic-2.0
LazyLoad: yes
Depends: R (>= 4.0), GenomicRanges, SummarizedExperiment
Imports: RColorBrewer, amap, gplots, grDevices, limma,
        GenomicAlignments, locfit, stats, utils, IRanges, lattice,
        systemPipeR, tools, Rcpp, dplyr, ggplot2, BiocParallel,
        parallel, S4Vectors, Rsamtools (>= 2.13.1), DESeq2, methods,
        graphics, ggrepel, apeglm, ashr, GreyListChIP
Suggests: BiocStyle, testthat, xtable, rgl, XLConnect, edgeR, csaw,
        BSgenome, GenomeInfoDb, profileplyr, rtracklayer, grid
LinkingTo: Rhtslib (>= 1.99.1), Rcpp
SystemRequirements: GNU make
Collate: core.R parallel.R model.R counts.R contrast.R normalize.R
        analyze.R analyze_deseq2.R analyze_edgeR.R blacklist.R report.R
        plots.R plotProfile.R io.R helper.R utils.R RcppExports.R
        cpp_wrapper.R DBA.R
biocViews: Sequencing, ChIPSeq,ATACSeq, DNaseSeq, MethylSeq, RIPSeq,
        DifferentialPeakCalling, DifferentialMethylation,
        GeneRegulation, HistoneModification, PeakDetection,
        BiomedicalInformatics, CellBiology, MultipleComparison,
        Normalization, ReportWriting, Epigenetics, FunctionalGenomics
URL:
        https://www.cruk.cam.ac.uk/core-facilities/bioinformatics-core/software/DiffBind
git_url: https://git.bioconductor.org/packages/DiffBind
git_branch: RELEASE_3_18
git_last_commit: 00284e8
git_last_commit_date: 2023-10-24
Date/Publication: 2023-10-24
NeedsCompilation: yes
Packaged: 2023-10-24 21:02:50 UTC; biocbuild
Author: Rory Stark [aut, cre],
  Gord Brown [aut]
Maintainer: Rory Stark <bioconductor@starkhome.com>
Built: R 4.3.3; x86_64-apple-darwin13.4.0; 2024-05-30 12:28:10 UTC; unix
