Package: RankMap
Title: Rank-based reference mapping for fast and robust cell type
        annotation in spatial and single-cell transcriptomics
Version: 1.1.1
Authors@R: 
    person(given = "Jinming", 
           family = "Cheng", 
           email="jinming.cheng@outlook.com", 
           role = c("aut", "cre"),
           comment = c(ORCID = "0000-0003-3806-4694"))
Description: RankMap is a fast and scalable tool for reference-based
        cell type annotation of single-cell and spatial transcriptomics
        data. It uses ranked gene expression and multinomial regression
        to achieve robust predictions, even with partial gene coverage.
        Compatible with Seurat, SingleCellExperiment, and
        SpatialExperiment objects, RankMap offers flexible
        preprocessing and significantly faster runtime than tools like
        SingleR, Azimuth, and RCTD.
License: GPL (>= 3)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
Imports: dplyr, glmnet, graphics, magrittr, Matrix, matrixStats, rlang,
        Seurat, stats, SummarizedExperiment
biocViews: Spatial, SingleCell, Transcriptomics, GeneExpression,
        Annotation, Regression, Preprocessing, Software
URL: https://github.com/jinming-cheng/RankMap
BugReports: https://github.com/jinming-cheng/RankMap/issues
Depends: R (>= 4.5.0)
Suggests: BiocStyle, knitr, rmarkdown, SingleCellExperiment, testthat
        (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
Config/roxygen2/version: 8.0.0
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev python3 zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-05-11 05:53:14 UTC
RemoteUrl: https://github.com/bioc/RankMap
RemoteRef: HEAD
RemoteSha: 3795f06b33063fb58e6c138dd0ce32b0a3f9414d
NeedsCompilation: no
Packaged: 2026-07-10 06:26:39 UTC; root
Author: Jinming Cheng [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-3806-4694>)
Maintainer: Jinming Cheng <jinming.cheng@outlook.com>