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.
Version: 0.1.0 Depends: R (≥ 4.1.0) Imports: cowplot, doParallel, foreach, DoubleML, e1071, igraph, ggplot2, ggrastr, ggrepel, grandR, lpSolve, mlr3, pROC, reshape2, scales, Seurat, stats Published: 2025-02-03 DOI: 10.32614/CRAN.package.HetSeq Author: Kevin Berg [aut, cre], Florian Erhard [aut], Lygeri Sakellaridi [aut] Maintainer: Kevin Berg <Kevin.Berg at informatik.uni-regensburg.de> BugReports: https://github.com/erhard-lab/HetSeq/issues License: Apache License (≥ 2) URL: https://github.com/erhard-lab/HetSeq NeedsCompilation: no Materials: README, NEWS CRAN checks: HetSeq results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=HetSeq to link to this page.
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