Package: HetSeq
Title: Identifying Modulators of Cellular Responses Leveraging
        Intercellular Heterogeneity
Version: 0.1.1
Authors@R: c(
    person("Kevin", "Berg", , "Kevin.Berg@informatik.uni-regensburg.de", role = c("aut", "cre")),
    person("Florian", "Erhard", , "Florian.Erhard@informatik.uni-regensburg.de", role = "aut",
           comment = c(ORCID = "0000-0002-3574-6983")),
    person("Lygeri", "Sakellaridi", , "Lygeri.Sakellaridi@informatik.uni-regensburg.de", role = "aut")
  )
Author: Kevin Berg [aut, cre], Florian Erhard [aut]
        (<https://orcid.org/0000-0002-3574-6983>), Lygeri Sakellaridi
        [aut]
Maintainer: Kevin Berg <Kevin.Berg@informatik.uni-regensburg.de>
Description: Cellular responses to perturbations are highly
        heterogeneous and depend largely on the initial state of cells.
        Connecting post-perturbation cells via cellular trajectories to
        untreated cells (e.g. by leveraging metabolic labeling
        information) enables exploitation of intercellular
        heterogeneity as a combined knock-down and overexpression
        screen to identify pathway modulators, termed Heterogeneity-seq
        (see 'Berg et al' <doi:10.1101/2024.10.28.620481>). This
        package contains functions to generate cellular trajectories
        based on scSLAM-seq (single-cell, thiol-(SH)-linked alkylation
        of RNA for metabolic labelling sequencing) time courses,
        functions to identify pathway modulators and to visualize the
        results.
License: Apache License (>= 2)
URL: https://github.com/erhard-lab/HetSeq
BugReports: https://github.com/erhard-lab/HetSeq/issues
Depends: R (>= 4.1.0)
Imports: cowplot, doParallel, foreach, DoubleML, e1071, igraph,
        ggplot2, ggrastr, ggrepel, grandR, lpSolve, mlr3, pROC,
        reshape2, scales, Seurat, stats
Encoding: UTF-8
RoxygenNote: 7.2.3
Config/pak/sysreqs: libcairo2-dev cmake libfontconfig1-dev
        libfreetype6-dev libfribidi-dev libglpk-dev make
        libharfbuzz-dev libicu-dev libjpeg-dev libpng-dev libtiff-dev
        libuv1-dev libwebp-dev libxml2-dev libssl-dev python3
        zlib1g-dev
Repository: https://erhard-lab.r-universe.dev
Date/Publication: 2026-10-07 11:29:49 UTC
RemoteUrl: https://github.com/erhard-lab/hetseq
RemoteRef: HEAD
RemoteSha: 41ea419e200e9670de4645ed322ef62855afa368
NeedsCompilation: no
Packaged: 2026-10-07 17:14:55 UTC; root