scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing

Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using 'R'. 'scCustomize' aims to provide 1) Customized visualizations for aid in ease of use and to create more aesthetic and functional visuals. 2) Improve speed/reproducibility of common tasks/pieces of code in scRNA-seq analysis with a single or group of functions. For citation please use: Marsh SE (2021) "Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing" <doi:10.5281/zenodo.5706430> RRID:SCR_024675.

Version: 3.2.0
Depends: R (≥ 4.0.0), Seurat (≥ 4.3.0.1)
Imports: circlize, cli (≥ 3.2.0), cowplot, data.table, dplyr, forcats, ggbeeswarm, ggplot2, ggprism, ggrastr, ggrepel, glue, grDevices, grid, janitor, lifecycle, magrittr, Matrix (≥ 1.5.0), methods, paletteer, patchwork, pbapply, purrr, rlang (≥ 1.1.3), scales, scattermore (≥ 1.2), SeuratObject (≥ 5.0.0), stats, stringi, stringr, tibble, tidyr
Suggests: BiocFileCache, ComplexHeatmap, dittoSeq, DropletUtils, ggpubr, hdf5r, knitr, Nebulosa, remotes, reticulate, rliger, rmarkdown, scuttle, tidyselect, qs, viridis
Published: 2025-09-10
DOI: 10.32614/CRAN.package.scCustomize
Author: Samuel Marsh ORCID iD [aut, cre], Ming Tang [ctb], Velina Kozareva [ctb], Lucas Graybuck [ctb], Zoe Clarke ORCID iD [ctb]
Maintainer: Samuel Marsh <sccustomize at gmail.com>
BugReports: https://github.com/samuel-marsh/scCustomize/issues
License: GPL (≥ 3)
URL: https://github.com/samuel-marsh/scCustomize, https://samuel-marsh.github.io/scCustomize/, https://doi.org/10.5281/zenodo.5706431
NeedsCompilation: no
Materials: README, NEWS
CRAN checks: scCustomize results

Documentation:

Reference manual: scCustomize.html , scCustomize.pdf

Downloads:

Package source: scCustomize_3.2.0.tar.gz
Windows binaries: r-devel: scCustomize_3.2.0.zip, r-release: scCustomize_3.2.0.zip, r-oldrel: scCustomize_3.2.0.zip
macOS binaries: r-release (arm64): scCustomize_3.2.0.tgz, r-oldrel (arm64): scCustomize_3.2.0.tgz, r-release (x86_64): scCustomize_3.2.0.tgz, r-oldrel (x86_64): scCustomize_3.2.0.tgz
Old sources: scCustomize archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=scCustomize to link to this page.