Package: bcbioRNASeq
Title: RNA-Seq Utilities
Description: Quality control and differential expression for bcbio RNA-seq and
    small RNA-seq experiments.
Version: 0.1.2
Authors@R: as.person(c(
    "Michael Steinbaugh <mike@steinbaugh.com> [aut, cre]",
    "Lorena Pantano <lorena.pantano@gmail.com> [aut]",
    "Rory Kirchner <roryk@alum.mit.edu> [aut]",
    "Victor Barrera <barrera.vic@gmail.com> [aut]",
    "Mary Piper <mary.piper@gmail.com> [aut]",
    "Meeta Mistry <meeta.mistry@gmail.com> [aut]",
    "Radhika Khetani <rkhetani@hsph.harvard.edu> [aut]",
    "Kayleigh Rutherford <kayrut1@gmail.com> [aut]",
    "John Hutchinson <jnhutchinson@gmail.com> [aut]",
    "Shannan Ho Sui <shosui@hsph.harvard.edu> [aut]",
    "Harvard Chan Bioinformatics Core <bioinformatics@hsph.harvard.edu> [cph, fnd]"
  ))
URL:
    http://bioinformatics.sph.harvard.edu/bcbioRNASeq,
    https://github.com/hbc/bcbioRNASeq
BugReports: https://github.com/hbc/bcbioRNASeq/issues
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends:
    R (>= 3.4.0),
    SummarizedExperiment (>= 1.8.0)
Imports:
    basejump (>= 0.1.1),
    BiocGenerics (>= 0.24.0),
    cowplot (>= 0.8.0),
    DEGreport (>= 1.14.0),
    DESeq2 (>= 1.18.0),
    dplyr (>= 0.7.4),
    edgeR (>= 3.20.0),
    ggplot2 (>= 2.2.1),
    ggrepel (>= 0.7.0),
    grid,
    grDevices,
    knitr (>= 1.17),
    magrittr (>= 1.5),
    methods,
    pheatmap (>= 1.0.8),
    RColorBrewer,
    readr (>= 1.1.1),
    reshape2 (>= 1.4.2),
    rlang (>= 0.1.2),
    S4Vectors (>= 0.16.0),
    scales,
    stats,
    stringr (>= 1.2.0),
    tibble (>= 1.3.4),
    tidyr (>= 0.7.2),
    tximport (>= 1.6.0),
    utils,
    viridis (>= 0.4.0),
    vsn (>= 3.46.0)
Suggests:
    BiocStyle,
    devtools,
    formatR,
    lintr (>= 1.0.1),
    rmarkdown,
    testthat,
    tidyverse
Remotes:
    lpantano/DEGreport,
    steinbaugh/basejump
biocViews:
    DataImport,
    DataRepresentation,
    DifferentialExpression,
    GeneExpression,
    Infrastructure,
    QualityControl,
    ReportWriting,
    RNASeq,
    Visualization
Roxygen: list(markdown = TRUE)
RoxygenNote: 6.0.1.9000
