DESCRIPTION

Type: Package
Package: tidybulk
Title: Brings transcriptomics to the tidyverse 
Version: 1.17.7
Authors@R: c(person("Stefano", "Mangiola", email = "mangiolastefano@gmail.com",
                  role = c("aut", "cre")),
            person("Maria", "Doyle", email = "Maria.Doyle@petermac.org",
            role = c("ctb"))
                  )
Description: This is a collection of utility functions that allow
    to perform exploration of and calculations to RNA sequencing data, in
    a modular, pipe-friendly and tidy fashion.
License: GPL-3
Depends:
    R (>= 4.4.0),
    ttservice (>= 0.3.6)
Imports:
    tibble,
    readr,
    dplyr (>= 1.1.0),
    magrittr,
    tidyr,
    stringi,
    stringr,
    rlang,
    purrr,
    tidyselect,
    preprocessCore,
    stats,
    parallel,
    utils,
    lifecycle,
    scales,
    SummarizedExperiment,
    GenomicRanges,
    methods,
    S4Vectors,
    crayon,
    Matrix
Suggests:
    BiocStyle,
    testthat,
    vctrs,
    AnnotationDbi,
    BiocManager,
    Rsubread,
    e1071,
    edgeR,
    limma,
    org.Hs.eg.db,
    org.Mm.eg.db,
    sva,
    GGally,
    knitr,
    qpdf,
    covr,
    Seurat,
    KernSmooth,
    Rtsne,
    ggplot2,
    widyr,
    clusterProfiler,
    msigdbr,
    DESeq2,
    broom,
    survival,
    boot,
    betareg,
    tidyHeatmap,
    pasilla,
    ggrepel,
    devtools,
    functional,
    survminer,
    tidySummarizedExperiment,
    markdown,
    uwot,
    matrixStats,
    igraph,
    EGSEA,
    IRanges,
    here,
    glmmSeq,
    pbapply,
    pbmcapply,
    lme4,
    glmmTMB,
    MASS,
    pkgconfig
VignetteBuilder: 
    knitr
RdMacros:
    lifecycle
Biarch: true
biocViews: AssayDomain, Infrastructure, RNASeq, DifferentialExpression, GeneExpression, Normalization, Clustering, QualityControl, Sequencing, Transcription, Transcriptomics
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.2
LazyDataCompression: xz
URL: https://github.com/stemangiola/tidybulk
BugReports: https://github.com/stemangiola/tidybulk/issues