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] (ORCID: <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
NeedsCompilation: no
Packaged: 2026-06-01 13:56:45 UTC; bergkevi
Repository: CRAN
Date/Publication: 2026-06-01 14:40:13 UTC
Built: R 4.5.2; ; 2026-06-01 14:49:00 UTC; unix
