DESCRIPTION

Package: SCP
Type: Package
Title: Single Cell Pipeline
Version: 0.3.0
Author: Hao Zhang
Maintainer: Hao Zhang <haozhang@njmu.edu.cn>
Description: SCP provides a comprehensive set of tools for single cell data processing and downstream analysis.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: True
LazyDataCompression: xz
Depends:
    R (>= 4.1.0)
biocViews: SingleCell, Visualization
Imports:
    AnnotationDbi,
    BiocParallel,
    biomaRt,
    ComplexHeatmap (>= 2.13.0),
    circlize,
    clusterProfiler,
    cowplot,
    dplyr (>= 1.1.0),
    ggnewscale,
    ggplot2 (>= 3.4.0),
    ggtree (>= 3.6.1),
    ggrepel,
    GO.db,
    GOSemSim,
    grDevices,
    grid,
    gtable,
    gtools,
    graphics,
    igraph,
    intrinsicDimension,
    Matrix (>= 1.5-3),
    methods,
    mgcv,
    org.Hs.eg.db,
    org.Mm.eg.db,
    parallelDist,
    png,
    proxyC,
    R.cache,
    R.utils,
    Rcpp,
    reshape2,
    reticulate,
    rlang,
    Signac,
    Seurat (>= 4.2.0),
    SeuratObject,
    scales,
    sf,
    simplifyEnrichment (>= 1.5.2),
    slingshot,
    uwot
Remotes:
    jokergoo/ComplexHeatmap,
    jokergoo/simplifyEnrichment,
    YuLab-SMU/ggtree
Suggests:
    AUCell,
    covr,
    destiny,
    devtools,
    ggupset,
    ggsignif,
    ggwordcloud,
    ggVennDiagram,
    glmGamPoi,
    hexbin,
    htmlwidgets,
    httr,
    HDF5Array,
    MASS,
    Mfuzz,
    metR,
    monocle,
    NMF,
    plotly,
    RcppParallel,
    RcppML,
    renv,
    rhdf5,
    rliger,
    S4Vectors,
    scattermore,
    scds,
    scDblFinder,
    scmap,
    styler,
    sva,
    SingleR,
    testthat (>= 3.0.0),
    UCell,
    umap
LinkingTo: Rcpp
RoxygenNote: 7.2.3
Config/testthat/edition: 3
URL: https://github.com/zhanghao-njmu/SCP