GenomicRanges/DESCRIPTION at master · RamsinghLab/GenomicRanges · GitHub

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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 analyze high-throughput sequencing data (a.k.a. NGS data).
	The package defines general purpose containers for storing genomic
	intervals. Specialized containers for representing and manipulating
	short alignments against a reference genome are defined in the
	GenomicAlignments package.
Version: 1.21.16
Author: P. Aboyoun, H. Pages and M. Lawrence
Maintainer: Bioconductor Package Maintainer <maintainer@bioconductor.org>
biocViews: Genetics, Infrastructure, Sequencing, Annotation, Coverage,
	GenomeAnnotation
Depends: R (>= 2.10), methods, BiocGenerics (>= 0.15.3), S4Vectors (>= 0.7.3),
	IRanges (>= 2.3.11), GenomeInfoDb (>= 1.1.20)
Imports: utils, stats, XVector
LinkingTo: S4Vectors, IRanges
Suggests: Biobase, AnnotationDbi (>= 1.21.1), annotate, Biostrings (>= 2.25.3),
	Rsamtools (>= 1.13.53), SummarizedExperiment (>= 0.1.5),
	GenomicAlignments, rtracklayer, BSgenome, GenomicFeatures,
	VariantAnnotation, AnnotationHub, DESeq, DEXSeq, edgeR, KEGGgraph,
	BiocStyle, digest, RUnit,
	BSgenome.Hsapiens.UCSC.hg19, BSgenome.Scerevisiae.UCSC.sacCer2,
	KEGG.db, hgu95av2.db, org.Hs.eg.db, org.Mm.eg.db, org.Sc.sgd.db,
	pasilla, pasillaBamSubset,
	TxDb.Athaliana.BioMart.plantsmart22,
	TxDb.Dmelanogaster.UCSC.dm3.ensGene,
	TxDb.Hsapiens.UCSC.hg19.knownGene
License: Artistic-2.0
Collate: utils.R
	phicoef.R
	transcript-utils.R
	constraint.R
	strand-utils.R
	range-squeezers.R
	GenomicRanges-class.R
	GRanges-class.R
	DelegatingGenomicRanges-class.R
	GNCList-class.R
	GIntervalTree-class.R
	GenomicRanges-comparison.R
	GenomicRangesList-class.R
	GRangesList-class.R
	makeGRangesFromDataFrame.R
	SummarizedExperiment-class.R
	SummarizedExperiment-rowData-methods.R
	RangedData-methods.R
	intra-range-methods.R
	inter-range-methods.R
	coverage-methods.R
	setops-methods.R
	findOverlaps-methods.R
	findOverlaps-GIntervalTree-methods.R
	nearest-methods.R
	mapCoords-methods.R
	absoluteRanges.R
	tileGenome.R
	tile-methods.R
	test_GenomicRanges_package.R
	zzz.R