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 |
| 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:
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