Package: bcbioRNASeq
Title: RNA-Seq Utilities
Description: Quality control and differential expression for bcbio RNA-seq and
    small RNA-seq experiments.
Version: 0.1.5
Authors@R: c(
    person(
        given = "Michael",
        family = "Steinbaugh",
        email = "mike@steinbaugh.com",
        role = c("aut", "cre")),
    person(
        given = "Lorena",
        family = "Pantano",
        email = "lorena.pantano@gmail.com",
        role = "aut"),
    person(
        given = "Rory",
        family = "Kirchner",
        email = "roryk@alum.mit.edu",
        role = "aut"),
    person(
        given = "Victor",
        family = "Barrera",
        email = "barrera.vic@gmail.com",
        role = "aut"),
    person(
        given = "Mary",
        family = "Piper",
        email = "mary.piper@gmail.com",
        role = "aut"),
    person(
        given = "Meeta",
        family = "Mistry",
        email = "meeta.mistry@gmail.com",
        role = "aut"),
    person(
        given = "Radhika",
        family = "Khetani",
        email = "rkhetani@hsph.harvard.edu",
        role = "aut"),
    person(
        given = "Kayleigh",
        family = "Rutherford",
        email = "kayrut1@gmail.com",
        role = "aut"),
    person(
        given = "Oliver",
        family = "Hofmann",
        email = "ohofmann72@gmail.com",
        role = "aut"),
    person(
        given = "John",
        family = "Hutchinson",
        email = "jnhutchinson@gmail.com",
        role = "aut"),
    person(
        given = "Shannan",
        family = "Ho Sui",
        email = "shosui@hsph.harvard.edu",
        role = "aut"),
    person(
        given = "Harvard Chan Bioinformatics Core",
        email = "bioinformatics@hsph.harvard.edu",
        role = c("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), bcbioBase (>=
        0.0.3), DESeq2 (>= 1.18.0), DEGreport (>= 1.14.0)
Imports: BiocGenerics (>= 0.24.0), cowplot (>= 0.8.0), dplyr (>=
        0.7.4), edgeR (>= 3.20.0), ggplot2 (>= 2.2.1), ggrepel (>=
        0.6.5), grid, grDevices, knitr (>= 1.16), magrittr (>= 1.5),
        methods, pbapply (>= 1.3), pheatmap (>= 1.0.8), RColorBrewer,
        readr (>= 1.1.1), reshape2 (>= 1.4.2), rlang (>= 0.1.2),
        S4Vectors (>= 0.16.0), stats, stringr (>= 1.2.0), tibble (>=
        1.3.4), tidyr (>= 0.7.1), tximport (>= 1.6.0), utils, viridis
        (>= 0.4.0), vsn (>= 3.46.0)
Suggests: BiocStyle, clusterProfiler, devtools, DOSE, formatR, lintr,
        pathview, rmarkdown, roxygen2, testthat, tidyverse
Remotes: hbc/bcbioBase, lpantano/DEGreport
biocViews: DataImport, DataRepresentation, DifferentialExpression,
        GeneExpression, Infrastructure, QualityControl, ReportWriting,
        RNASeq, Visualization
Roxygen: list(markdown = TRUE)
RoxygenNote: 6.0.1
Author: Michael Steinbaugh [aut, cre],
  Lorena Pantano [aut],
  Rory Kirchner [aut],
  Victor Barrera [aut],
  Mary Piper [aut],
  Meeta Mistry [aut],
  Radhika Khetani [aut],
  Kayleigh Rutherford [aut],
  Oliver Hofmann [aut],
  John Hutchinson [aut],
  Shannan Ho Sui [aut],
  Harvard Chan Bioinformatics Core [cph, fnd]
Maintainer: Michael Steinbaugh <mike@steinbaugh.com>
Built: R 3.4.1; ; 2018-02-13 19:34:19 UTC; unix
