Package: CelliD
Type: Package
Title: Unbiased Extraction of Single Cell gene signatures using
        Multiple Correspondence Analysis
Version: 1.20.0
Authors@R: c(person("Akira", "Cortal", email = "akira.cortal@institutimagine.org",
  role = c("aut", "cre")),  person("Antonio", "Rausell", role= c("aut", "ctb"), email = "antonio.rausell@institutimagine.org"))
Description: CelliD is a clustering-free multivariate statistical
        method for the robust extraction of per-cell gene signatures
        from single-cell RNA-seq. CelliD allows unbiased cell identity
        recognition across different donors, tissues-of-origin, model
        organisms and single-cell omics protocols. The package can also
        be used to explore functional pathways enrichment in single
        cell data.
Depends: R (>= 4.1), Seurat (>= 4.0.1), SingleCellExperiment
License: GPL-3 + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: Rcpp, RcppArmadillo, stats, utils, Matrix, tictoc, scater,
        stringr, irlba, data.table, glue, pbapply, umap, Rtsne,
        reticulate, fastmatch, matrixStats, ggplot2, BiocParallel,
        SummarizedExperiment, fgsea
Suggests: knitr, rmarkdown, BiocStyle, testthat, tidyverse, ggpubr,
        destiny, ggrepel
VignetteBuilder: knitr
RoxygenNote: 7.1.1
biocViews: RNASeq, SingleCell, DimensionReduction, Clustering,
        GeneSetEnrichment, GeneExpression, ATACSeq
LinkingTo: Rcpp, RcppArmadillo
PackageStatus: Deprecated
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libpng-dev
        libuv1-dev libxml2-dev libssl-dev python3 zlib1g-dev
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28 12:55:19 UTC
RemoteUrl: https://github.com/bioc/CelliD
RemoteRef: RELEASE_3_23
RemoteSha: bde01ba3dc7b729b541a0034a98cb16b0dc2bf39
NeedsCompilation: yes
Packaged: 2026-10-04 07:17:45 UTC; root
Author: Akira Cortal [aut, cre],
  Antonio Rausell [aut, ctb]
Maintainer: Akira Cortal <akira.cortal@institutimagine.org>