HetSeq: Identifying Modulators of Cellular Responses Leveraging Intercellular Heterogeneity

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:

Reference manual:

HetSeq.pdf

Downloads:

Package source:	HetSeq_0.1.0.tar.gz
Windows binaries:	r-devel: HetSeq_0.1.0.zip, r-release: HetSeq_0.1.0.zip, r-oldrel: HetSeq_0.1.0.zip
macOS binaries:	r-devel (arm64): HetSeq_0.1.0.tgz, r-release (arm64): HetSeq_0.1.0.tgz, r-oldrel (arm64): HetSeq_0.1.0.tgz, r-devel (x86_64): HetSeq_0.1.0.tgz, r-release (x86_64): HetSeq_0.1.0.tgz, r-oldrel (x86_64): HetSeq_0.1.0.tgz

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