Package: GenomicRanges
Title: Representation and manipulation of genomic intervals and
        variables defined along a genome
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.
Version: 1.34.0
Encoding: UTF-8
Author: P. Aboyoun, H. Pagès, and M. Lawrence
Maintainer: Bioconductor Package Maintainer <maintainer@bioconductor.org>
biocViews: Genetics, Infrastructure, Sequencing, Annotation, Coverage,
        GenomeAnnotation
Depends: R (>= 2.10), methods, stats4, BiocGenerics (>= 0.25.3),
        S4Vectors (>= 0.19.11), IRanges (>= 2.15.12), GenomeInfoDb (>=
        1.15.2)
Imports: utils, stats, XVector (>= 0.19.8)
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, KEGG.db, 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,
        BiocStyle
License: Artistic-2.0
VignetteBuilder: knitr
Collate: 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
        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
git_url: https://git.bioconductor.org/packages/GenomicRanges
git_branch: RELEASE_3_8
git_last_commit: ebaad5c
git_last_commit_date: 2018-10-30
Date/Publication: 2018-10-30
NeedsCompilation: yes
Packaged: 2018-10-30 23:14:12 UTC; biocbuild
Built: R 3.5.1; x86_64-conda_cos6-linux-gnu; 2018-12-12 04:35:51 UTC; unix
