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: 1.46.1
License: Artistic-2.0
Encoding: UTF-8
Author: P. Aboyoun, H. Pagès, and M. Lawrence
Maintainer: Bioconductor Package Maintainer <maintainer@bioconductor.org>
Depends: R (>= 4.0.0), methods, stats4, BiocGenerics (>= 0.37.0),
        S4Vectors (>= 0.27.12), IRanges (>= 2.23.9), GenomeInfoDb (>=
        1.15.2)
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, Gviz, VariantAnnotation, AnnotationHub,
        DESeq2, DEXSeq, edgeR, KEGGgraph, RNAseqData.HNRNPC.bam.chr14,
        pasillaBamSubset, KEGGREST, hgu95av2.db, hgu95av2probe,
        BSgenome.Scerevisiae.UCSC.sacCer2, BSgenome.Hsapiens.UCSC.hg19,
        BSgenome.Mmusculus.UCSC.mm10,
        TxDb.Athaliana.BioMart.plantsmart22,
        TxDb.Dmelanogaster.UCSC.dm3.ensGene,
        TxDb.Hsapiens.UCSC.hg19.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 nearest-methods.R absoluteRanges.R
        tileGenome.R tile-methods.R genomicvars.R zzz.R
RoxygenNote: 7.1.1
git_url: https://git.bioconductor.org/packages/GenomicRanges
git_branch: RELEASE_3_14
git_last_commit: e422642
git_last_commit_date: 2021-11-16
Date/Publication: 2021-11-18
NeedsCompilation: yes
Packaged: 2021-11-18 11:36:33 UTC; biocbuild
Built: R 4.1.3; x86_64-pc-linux-gnu; 2023-08-22 20:56:53 UTC; unix