Package: DepecheR
Version: 1.28.0
Date: 2024-08-22
Title: Determination of essential phenotypic elements of clusters in
        high-dimensional entities
biocViews:
        Software,CellBasedAssays,Transcription,DifferentialExpression,
        DataRepresentation,ImmunoOncology,Transcriptomics,Classification,Clustering,
        DimensionReduction,FeatureExtraction,FlowCytometry,RNASeq,SingleCell,
        Visualization
Authors@R: c(
    person('Jakob', 'Theorell', email = "jakob.theorell@ki.se",
        role = c("aut", "cre"), comment=c(ORCID="0000-0001-8752-3151")), 
    person('Axel', 'Theorell', email = "axel.theorell@gmail.com", 
        role = c("aut")))
Description: The purpose of this package is to identify traits in a
        dataset that can separate groups. This is done on two levels.
        First, clustering is performed, using an implementation of
        sparse K-means. Secondly, the generated clusters are used to
        predict outcomes of groups of individuals based on their
        distribution of observations in the different clusters. As
        certain clusters with separating information will be
        identified, and these clusters are defined by a sparse number
        of variables, this method can reduce the complexity of data, to
        only emphasize the data that actually matters.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.3.1
Depends: R (>= 4.0)
Imports: ggplot2 (>= 3.1.0), MASS (>= 7.3.51), Rcpp (>= 1.0.0), dplyr
        (>= 0.7.8), gplots (>= 3.0.1), viridis (>= 0.5.1), foreach (>=
        1.4.4), doSNOW (>= 1.0.16), matrixStats (>= 0.54.0), mixOmics
        (>= 6.6.1), moments (>= 0.14), grDevices (>= 3.5.2), graphics
        (>= 3.5.2), stats (>= 3.5.2), utils (>= 3.5), methods (>= 3.5),
        parallel (>= 3.5.2), reshape2 (>= 1.4.3), beanplot (>= 1.2),
        FNN (>= 1.1.3), robustbase (>= 0.93.5), gmodels (>= 2.18.1),
        collapse (>= 1.9.2), ClusterR (>= 1.3.2)
LinkingTo: Rcpp, RcppEigen
Suggests: uwot, testthat, knitr, rmarkdown, BiocStyle
VignetteBuilder: knitr
Config/pak/sysreqs: cmake libfreetype6-dev libglpk-dev libglu1-mesa-dev
        libgmp3-dev make texlive libicu-dev libpng-dev libuv1-dev
        libxml2-dev libgl1-mesa-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 12:49:44 UTC
RemoteUrl: https://github.com/bioc/DepecheR
RemoteRef: RELEASE_3_23
RemoteSha: 19670a06ca63aef2af7d91c5225cc6dbd63e4b69
NeedsCompilation: yes
Packaged: 2026-06-23 23:05:06 UTC; root
Author: Jakob Theorell [aut, cre] (ORCID:
    <https://orcid.org/0000-0001-8752-3151>),
  Axel Theorell [aut]
Maintainer: Jakob Theorell <jakob.theorell@ki.se>