spacedeconv/DESCRIPTION at main · omnideconv/spacedeconv · GitHub

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Package: spacedeconv
Title: Unified Interface to spatial transcriptomics deconvolution tools
Version: 1.0.0
URL: https://omnideconv.github.io/spacedeconv
Authors@R:
    c(
      person(given="Constantin", family="Zackl", email="constantin.zackl@student.uibk.ac.at", role = c("aut"), comment = c(ORCID = "0000-0003-1991-6943")),
      person(given="Felix", family="Petschko", email="felix.petschko@uibk.ac.at", role = c("cre", "ctb"), comment = c(ORCID = "0009-0009-5561-0600"))
    )
Description: Collection of 31 deconvolution tools for spatial transcriptomics data.
License: GPL-3 + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
VignetteBuilder: knitr
LazyData: FALSE
Depends:
    R (>= 4.1.0)
Imports:
    Giotto,
    CARD,
    utils,
    methods,
    remotes,
    SingleCellExperiment,
    SpatialExperiment,
    SummarizedExperiment,
    anndata,
    edgeR,
    ggplot2,
    magrittr,
    RColorBrewer,
    S4Vectors,
    Matrix,
    colorspace,
    sf,
    ggpubr,
    spatstat.geom,
    spatstat.explore,
    progress,
    DelayedArray,
    circlize,
    cli,
    patchwork,
    reticulate,
    corrplot,
    ggridges,
    testit,
    decoupleR,
    multimode,
    psych,
    ComplexHeatmap,
    grid,
    grDevices,
    stats,
    OmnipathR,
    scales,
    spacexr,
    SPOTlight,
    immunedeconv,
    devtools,
    pkgdown,
    rmarkdown,
    uuid,
    scran,
    knitr,
    testthat (>= 3.0.0),
    scuttle,
    tidyr,
    xCell,
    markdown,
    EPIC,
    Seurat (<= 4.4.0),
    SeuratObject,
    plotly,
    Orthology.eg.db,
    org.Mm.eg.db,
    org.Hs.eg.db,
    AnnotationDbi,
    pbapply
Remotes:
    omnideconv/immunedeconv,
    dmcable/spacexr,
    drieslab/Giotto@v3.3.2,
    MarcElosua/SPOTlight,
    YingMa0107/CARD@2d64b91abb5cdd0c7f576b1c5d4727c84e7c93a0,
    drighelli/SpatialExperiment,
    dviraran/xCell,
Config/testthat/edition: 3
Config/reticulate:
  list(
    packages = list(
      list(package = "python-igraph"),
      list(package = "leidenalg"),
      list(package = "python-louvain"),
      list(package = "scikit-learn"),
      list(package = "scanpy", pip=TRUE),
      list(package = "cell2location", pip=TRUE),
      list(package = "anndata", pip = TRUE)
    )
  )