CellProgramMapper/DESCRIPTION at main · WaveoffBioMed/CellProgramMapper · GitHub

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Package: CellProgramMapper
Type: Package
Title: Map Single Cells to Reference Gene Expression Programs
Version: 1.0.0
Date: 2026-01-26
Authors@R: c(
    person("Zaoqu", "Liu", email = "liuzaoqu@163.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-0452-742X"))
    )
Description: Maps single-cell RNA sequencing data to reference gene expression
    programs (GEPs) using non-negative matrix factorization. Enables cell type
    annotation and state characterization by projecting query cells onto
    pre-built or custom reference programs. Includes tools for building
    consensus references from multiple datasets. Features C++ accelerated
    NNLS solvers and built-in machine learning models for cell type prediction.
License: MIT + file LICENSE
URL: https://github.com/Zaoqu-Liu/CellProgramMapper,
    https://zaoqu-liu.github.io/CellProgramMapper/
BugReports: https://github.com/Zaoqu-Liu/CellProgramMapper/issues
Encoding: UTF-8
LazyData: true
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Depends:
    R (>= 4.0.0)
Imports:
    Rcpp (>= 1.0.0),
    Matrix,
    methods,
    stats,
    utils,
    curl,
    yaml,
    future,
    future.apply,
    data.table,
    rappdirs,
    tools,
    jsonlite
Suggests:
    Seurat (>= 4.0.0),
    SeuratObject (>= 4.0.0),
    testthat (>= 3.0.0),
    knitr,
    rmarkdown,
    ggplot2,
    pheatmap,
    reshape2,
    anndata,
    hdf5r,
    reticulate
LinkingTo:
    Rcpp,
    RcppArmadillo
VignetteBuilder: knitr
Config/testthat/edition: 3
NeedsCompilation: yes