scregclust: Reconstructing the Regulatory Programs of Target Genes in scRNA-Seq Data

Implementation of the scregclust algorithm described in Larsson, Held, et al. (2024) <doi:10.1038/s41467-024-53954-3> which reconstructs regulatory programs of target genes in scRNA-seq data. Target genes are clustered into modules and each module is associated with a linear model describing the regulatory program.

Version: 0.2.0
Depends: R (≥ 3.5.0)
Imports: Matrix, stats, methods, utils, reshape, igraph, graphics, grid, cli, prettyunits, ggplot2, rlang, Rcpp (≥ 1.0.8)
LinkingTo: Rcpp, RcppEigen
Suggests: knitr, rmarkdown, testthat (≥ 3.0.0), Seurat (≥ 5.0.0), glmGamPoi, hdf5r
Published: 2024-12-06
DOI: 10.32614/CRAN.package.scregclust
Author: Felix Held ORCID iD [aut, cre], Ida Larsson ORCID iD [aut], Sven Nelander ORCID iD [aut], André Armatowski [ctb]
Maintainer: Felix Held <felix.held at gmail.com>
BugReports: https://github.com/scmethods/scregclust/issues
License: GPL (≥ 3)
URL: https://scmethods.github.io/scregclust/, https://github.com/scmethods/scregclust/
NeedsCompilation: yes
Citation: scregclust citation info
Materials: README NEWS
CRAN checks: scregclust results [issues need fixing before 2025-01-10]

Documentation:

Reference manual: scregclust.pdf
Vignettes: Demonstration of workflow (source, R code)

Downloads:

Package source: scregclust_0.2.0.tar.gz
Windows binaries: r-devel: scregclust_0.2.0.zip, r-release: scregclust_0.1.10.zip, r-oldrel: scregclust_0.1.10.zip
macOS binaries: r-release (arm64): scregclust_0.2.0.tgz, r-oldrel (arm64): scregclust_0.2.0.tgz, r-release (x86_64): scregclust_0.2.0.tgz, r-oldrel (x86_64): scregclust_0.2.0.tgz
Old sources: scregclust archive

Linking:

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