DESCRIPTION

Package: phenomix
Type: Package
Title: Explore the phenome 
Version: 0.99.6
Authors@R: c(person(given = "Brian",
                    family = "Schilder",
                    role = c("cre"),
                    email = "brian_schilder@alumni.brown.edu",
                    comment = c(ORCID = "0000-0001-5949-2191")) )
Description: R package for the exploration and analysis of many
    genotype-phenotype datasets at once.
License: GPL (>=3) 
URL: https://github.com/neurogenomics/phenomix
BugReports: https://github.com/neurogenomics/phenomix/issues
Encoding: UTF-8
LazyData: true 
Depends: R (>= 4.1.0)
SystemRequirements: Python (>= 3.7.0)
biocViews:
    Software
Imports: 
    Rdimtools,
    scKirby,
    utils,
    methods,
    Matrix,
    orthogene,
    MungeSumstats,
    variancePartition,
    dplyr,
    tibble,
    broom,
    data.table, 
    ggplot2, 
    ggrepel,
    heatmaply,
    patchwork,
    Seurat, 
    SeuratObject,
    gprofiler2,
    GeneOverlap,
    parallel,
    BiocParallel,
    AnnotationDbi,
    DelayedArray, 
    scales,
    stringr,
    MASS,
    sparsesvd,
    uwot,
    GenomicRanges,
    GenomicFiles,
    VariantAnnotation,
    GenomeInfoDb,
    piggyback,
    gh,
    tools,
    echotabix,
    KGExplorer
Suggests:
    markdown,
    rmarkdown,
    knitr,
    BiocStyle,
    covr,
    testthat (>= 3.0.0),
    remotes, 
    plotly, 
    sparklyr,
    ggpubr, 
    GenomicFeatures,
    TxDb.Hsapiens.UCSC.hg19.knownGene,
    TxDb.Hsapiens.UCSC.hg38.knownGene,
    org.Hs.eg.db,
    WGCNA,
    reticulate,
    scNLP,
    MOFA2,
    h2o,
    recipes,
    downloadR,
    HPOExplorer,
    Nebulosa,
    arrow,
    ggsankey,
    Hmisc,
    proxy
Remotes:
    github::neurogenomics/scNLP,
    github::neurogenomics/scKirby,
    github::neurogenomics/KGExplorer,
    github::neurogenomics/HPOExplorer,
    github::RajLabMSSM/echotabix,
    github::RajLabMSSM/downloadR,
    github::satijalab/seurat-wrappers,
    github::davidsjoberg/ggsankey
RoxygenNote: 7.3.1
VignetteBuilder: knitr 
Config/testthat/edition: 3