Vesalius/DESCRIPTION at main · WonLab-CS/Vesalius · GitHub

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Package: vesalius
Type: Package
Title: Vesalius: Dissecting Tissue Anatomy from Spatial Transcriptomic Data
Version: 2.0.0
Author: Patrick C.N. Martin
Maintainer: Patrick C.N. Martin <patrick.martin@cshs.org>
Description: We present Vesalius to decipher tissue anatomy by embracing various
   image analysis techniques for high-resolution ST data. Vesalius identifies
   spatially expressed genes linked to the morphology of tissue structures.
   Vesalius is a tool to perform high-resolution in silico anatomization and
   molecular characterization from ST data.
License: GPL-3 + file LICENSE
Collate: cost.R
    data.R
    dispatch.R
    embeddings.R
    equalize_image.R
    global_bindings.R
    image_plot.R
    integration.R
    interoperability.R
    isolate_territories.R
    map_assays.R
    map_metrics.R
    misc.R
    morphology_operators.R
    multi_mod.R
    normalization.R
    object_modification.R
    object_utilities_and_methods.R
    objects.R
    progress_messages.R
    RcppExports.R
    reformat.R
    regularize_image.R
    sanity_checks.R
    segment_image.R
    smooth_image.R
    spix.R
    territory_identity_and_markers.R
    territory_plot.R
    tiles.R
    vesalius.R
    view_gene_expression.R
    view_mapping_metrics.R
Depends: R (>= 4.0.0)
LinkingTo:
    Rcpp,
    RcppEigen
Imports:
    grDevices,
    stats,
    utils,
    deldir,
    sp,
    tvR,
    Matrix,
    RColorBrewer,
    future,
    future.apply,
    imagerExtra,
    methods,
    Signac,
    ggpubr,
    lmtest,
    infix,
    Seurat(>= 5.0.0),
    SeuratObject,
    imager,
    DESeq2,
    RANN,
    dplyr,
    edgeR,
    ggplot2,
    igraph,
    pwr,
    purrr,
    patchwork,
    ggnewscale,
    kohonen,
    Rcpp,
    TreeDist,
    NMF
Suggests:
    knitr,
    RUnit,
    rmarkdown,
    testthat (>= 3.0.0),
    sf,
    rlang
Encoding: UTF-8
LazyData: true
LazyDataCompression: bzip2
RoxygenNote: 7.3.2
VignetteBuilder: knitr
URL: https://patrickcnmartin.github.io/Vesalius/, https://github.com/patrickCNMartin/Vesalius, https://wonlab-cs.github.io/Vesalius/
Config/testthat/edition: 3
Config/rextendr/version: 0.2.0.9000