R interface to genome annotation files and the UCSC genome
browser
Michael Lawrence, Vince Carey, Robert Gentleman
R (>= 3.3), methods, GenomicRanges (>= 1.37.2)
BSgenome (>= 1.33.4), humanStemCell, microRNA (>= 1.1.1),
genefilter, limma, org.Hs.eg.db, hgu133plus2.db,
GenomicFeatures, BSgenome.Hsapiens.UCSC.hg19,
TxDb.Hsapiens.UCSC.hg19.knownGene, RUnit
Extensible framework for interacting with multiple genome 
  browsers (currently UCSC built-in) and manipulating 
  annotation tracks in various formats (currently GFF, BED, bedGraph, BED15,
  WIG, BigWig and 2bit built-in). The user may export/import tracks to/from the
  supported browsers, as well as query and modify the browser state, such as the
  current viewport.
io.R web.R ranges.R trackDb.R browser.R ucsc.R readGFF.R gff.R
bed.R wig.R utils.R bigWig.R bigBed.R chain.R quickload.R
trackhub.R twobit.R fasta.R tabix.R bam.R trackTable.R index.R
test_rtracklayer_package.R ncbi.R igv.R zzz.R