Package: recount
Title: Explore and download data from the recount project
Version: 1.0.17
Date: 2017-03-21
Authors@R: c(person("Leonardo", "Collado-Torres", role = c("aut", "cre"),
    email = "lcollado@jhu.edu"), person("Abhinav", "Nellore", role = "ctb",
    email = "anellore@gmail.com"), person(c("Andrew", "E."), "Jaffe",
    role = "ctb", email = "andrew.jaffe@libd.org"), person(c("Margaret", "A."),
    "Taub", role = "ctb", email = "mtaub@jhsph.edu"), person("Kai", "Kammers",
    role = "ctb", email = "kai.kammers@gmail.com"), person(c("Shannon", "E."),
    "Ellis", role = "ctb", email = "sellis18@jhmi.edu"), person(c("Kasper",
    "Daniel"), "Hansen", role = c("ctb"),
    email = "kasperdanielhansen@gmail.com"), person("Ben", "Langmead",
    role = "ctb", email = 'langmea@cs.jhu.edu'), person(c("Jeffrey", "T."),
    "Leek", role = c("aut", "ths"), email = "jtleek@gmail.com"))
Depends: R (>= 3.3.0), SummarizedExperiment
Imports: BiocParallel, derfinder, downloader, GEOquery, GenomeInfoDb,
        GenomicRanges, IRanges, methods, RCurl, rentrez, rtracklayer
        (>= 1.34.2), S4Vectors, stats, utils
Suggests: AnnotationDbi, BiocStyle, DESeq2, devtools (>= 1.6),
        EnsDb.Hsapiens.v79, GenomicFeatures, knitcitations, knitr (>=
        1.6), org.Hs.eg.db, regionReport, rmarkdown (>= 0.9.5),
        testthat
VignetteBuilder: knitr
Description: Explore and download data from the recount project available at
    https://jhubiostatistics.shinyapps.io/recount/. Using the recount package you can
    download RangedSummarizedExperiment objects at the gene, exon or exon-exon junctions level,
    the raw counts, the phenotype metadata used, the urls to the sample coverage
    bigWig files or the mean coverage bigWig file for a particular study. The
    RangedSummarizedExperiment objects can be used by different packages for
    performing differential expression analysis. Using
    http://bioconductor.org/packages/derfinder you can perform
    annotation-agnostic differential expression analyses with the data from the
    recount project as described at http://biorxiv.org/content/early/2016/08/08/068478.
License: Artistic-2.0
Encoding: UTF-8
LazyData: true
URL: https://github.com/leekgroup/recount
BugReports: https://support.bioconductor.org/t/recount/
biocViews: Coverage, DifferentialExpression, GeneExpression, RNASeq,
        Sequencing, Software, DataImport
RoxygenNote: 6.0.1
NeedsCompilation: no
Packaged: 2017-03-22 00:47:30 UTC; biocbuild
Author: Leonardo Collado-Torres [aut, cre],
  Abhinav Nellore [ctb],
  Andrew E. Jaffe [ctb],
  Margaret A. Taub [ctb],
  Kai Kammers [ctb],
  Shannon E. Ellis [ctb],
  Kasper Daniel Hansen [ctb],
  Ben Langmead [ctb],
  Jeffrey T. Leek [aut, ths]
Maintainer: Leonardo Collado-Torres <lcollado@jhu.edu>
Built: R 3.3.3; ; 2017-03-22 04:40:39 UTC; windows
