Package: GenomicRanges
Title: Representation and manipulation of genomic intervals
Description: The ability to efficiently represent and manipulate genomic
	annotations and alignments is playing a central role when it comes
	to analyzing high-throughput sequencing data (a.k.a. NGS data).
	The GenomicRanges package defines general purpose containers for
	storing and manipulating genomic intervals and variables defined along
	a genome. More specialized containers for representing and manipulating
	short alignments against a reference genome, or a matrix-like
	summarization of an experiment, are defined in the GenomicAlignments
	and SummarizedExperiment packages, respectively. Both packages build
	on top of the GenomicRanges infrastructure.
biocViews: Genetics, Infrastructure, DataRepresentation, Sequencing,
        Annotation, GenomeAnnotation, Coverage
URL: https://bioconductor.org/packages/GenomicRanges
BugReports: https://github.com/Bioconductor/GenomicRanges/issues
Version: 1.60.0
License: Artistic-2.0
Encoding: UTF-8
Authors@R: c(
	person("Patrick", "Aboyoun", role="aut"),
	person("Hervé", "Pagès", role=c("aut", "cre"),
		email="hpages.on.github@gmail.com"),
	person("Michael", "Lawrence", role="aut"),
	person("Sonali", "Arora", role="ctb"),
	person("Martin", "Morgan", role="ctb"),
	person("Kayla", "Morrell", role="ctb"),
	person("Valerie", "Obenchain", role="ctb"),
	person("Marcel", "Ramos", role="ctb"),
	person("Lori", "Shepherd", role="ctb"),
	person("Dan", "Tenenbaum", role="ctb"),
	person("Daniel", "van Twisk", role="ctb"))
Depends: R (>= 4.0.0), methods, stats4, BiocGenerics (>= 0.53.2),
        S4Vectors (>= 0.45.2), IRanges (>= 2.41.1), GenomeInfoDb (>=
        1.43.1)
Imports: utils, stats, XVector (>= 0.29.2)
LinkingTo: S4Vectors, IRanges
Suggests: Matrix, Biobase, AnnotationDbi, annotate, Biostrings (>=
        2.25.3), SummarizedExperiment (>= 0.1.5), Rsamtools (>=
        1.13.53), GenomicAlignments, rtracklayer, BSgenome,
        GenomicFeatures, txdbmaker, Gviz, VariantAnnotation,
        AnnotationHub, DESeq2, DEXSeq, edgeR, KEGGgraph,
        RNAseqData.HNRNPC.bam.chr14, pasillaBamSubset, KEGGREST,
        hgu95av2.db, hgu95av2probe, BSgenome.Scerevisiae.UCSC.sacCer2,
        BSgenome.Hsapiens.UCSC.hg38, BSgenome.Mmusculus.UCSC.mm10,
        TxDb.Athaliana.BioMart.plantsmart22,
        TxDb.Dmelanogaster.UCSC.dm3.ensGene,
        TxDb.Hsapiens.UCSC.hg38.knownGene,
        TxDb.Mmusculus.UCSC.mm10.knownGene, RUnit, digest, knitr,
        rmarkdown, BiocStyle
VignetteBuilder: knitr
Collate: normarg-utils.R utils.R phicoef.R transcript-utils.R
        constraint.R strand-utils.R genomic-range-squeezers.R
        GenomicRanges-class.R GenomicRanges-comparison.R
        GRanges-class.R GPos-class.R GRangesFactor-class.R
        DelegatingGenomicRanges-class.R GNCList-class.R
        GenomicRangesList-class.R GRangesList-class.R
        makeGRangesFromDataFrame.R makeGRangesListFromDataFrame.R
        RangedData-methods.R findOverlaps-methods.R
        intra-range-methods.R inter-range-methods.R coverage-methods.R
        setops-methods.R subtract-methods.R nearest-methods.R
        absoluteRanges.R tileGenome.R tile-methods.R genomicvars.R
        zzz.R
git_url: https://git.bioconductor.org/packages/GenomicRanges
git_branch: RELEASE_3_21
git_last_commit: 9d5d73b
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.21
Date/Publication: 2025-04-15
NeedsCompilation: yes
Packaged: 2025-04-16 01:01:31 UTC; biocbuild
Author: Patrick Aboyoun [aut],
  Hervé Pagès [aut, cre],
  Michael Lawrence [aut],
  Sonali Arora [ctb],
  Martin Morgan [ctb],
  Kayla Morrell [ctb],
  Valerie Obenchain [ctb],
  Marcel Ramos [ctb],
  Lori Shepherd [ctb],
  Dan Tenenbaum [ctb],
  Daniel van Twisk [ctb]
Maintainer: Hervé Pagès <hpages.on.github@gmail.com>
Built: R 4.5.0; x86_64-w64-mingw32; 2025-04-16 14:32:47 UTC; windows
Archs: x64
