Package: RaceID
Title: Identification of Cell Types, Inference of Lineage Trees, and
        Prediction of Noise Dynamics from Single-Cell RNA-Seq Data
Version: 0.4.2
Date: 2026-06-16
Authors@R: person(given = "Dominic",
                    family = "Grün",
                    role = c("aut", "cre"),
                    email = "dominic.gruen@gmail.com")
Maintainer: Dominic Grün <dominic.gruen@gmail.com>
Description: Application of 'RaceID' allows inference of cell types and
        prediction of lineage trees by the 'StemID2' algorithm (Herman,
        J.S., Sagar, Grun D. (2018) <DOI:10.1038/nmeth.4662>). 'VarID2'
        is part of this package and allows quantification of biological
        gene expression noise at single-cell resolution
        (Rosales-Alvarez, R.E., Rettkowski, J., Herman, J.S., Dumbovic,
        G., Cabezas-Wallscheid, N., Grun, D. (2023)
        <DOI:10.1186/s13059-023-02974-1>).
Depends: R (>= 3.5.0)
biocViews:
Imports: coop, compiler, cluster, FateID, FNN, fpc, ggplot2, grDevices,
        harmony, ica, igraph, irlba, leiden, locfit, methods, MASS,
        Matrix, matrixStats, parallel, pheatmap, princurve, quadprog,
        randomForest, runner, Rcpp, RColorBrewer, Rtsne, umap, vegan
LinkingTo: Rcpp (>= 0.11.0)
Suggests: batchelor, DESeq2, knitr, rmarkdown, SingleCellExperiment,
        slingshot, SummarizedExperiment
VignetteBuilder: knitr
SystemRequirements: C++17
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.2.3
NeedsCompilation: yes
Packaged: 2026-06-16 18:22:41 UTC; root
Author: Dominic Grün [aut, cre]
Config/pak/sysreqs: libglpk-dev libpng-dev libxml2-dev libssl-dev
        python3
Repository: https://dgrun.r-universe.dev
Date/Publication: 2026-06-16 17:26:23 UTC
RemoteUrl: https://github.com/cran/RaceID
RemoteRef: HEAD
RemoteSha: 8bf608144d928eb84d4f896afd80a6503b7481f1