Representation and manipulation of genomic intervals and
variables defined along a genome
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.
Genetics, Infrastructure, Sequencing, Annotation, Coverage,
GenomeAnnotation
Biobase, AnnotationDbi (>= 1.21.1), annotate, Biostrings (>=
2.25.3), Rsamtools (>= 1.13.53), SummarizedExperiment (>=
0.1.5), Matrix, GenomicAlignments, rtracklayer, BSgenome,
GenomicFeatures, Gviz, VariantAnnotation, AnnotationHub,
DESeq2, 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,
BSgenome.Mmusculus.UCSC.mm10,
TxDb.Mmusculus.UCSC.mm10.knownGene,
RNAseqData.HNRNPC.bam.chr14, hgu95av2probe
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