https://github.com/samuel-marsh/sccustomize
R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
https://github.com/samuel-marsh/sccustomize
customization ggplot2 scrna-seq seurat single-cell single-cell-genomics single-cell-rna-seq visualization
Last synced: 18 days ago
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R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
- Host: GitHub
- URL: https://github.com/samuel-marsh/sccustomize
- Owner: samuel-marsh
- License: gpl-3.0
- Created: 2021-09-29T19:41:40.000Z (over 3 years ago)
- Default Branch: master
- Last Pushed: 2025-04-24T19:41:49.000Z (about 1 month ago)
- Last Synced: 2025-05-15T20:06:42.813Z (18 days ago)
- Topics: customization, ggplot2, scrna-seq, seurat, single-cell, single-cell-genomics, single-cell-rna-seq, visualization
- Language: R
- Homepage: https://samuel-marsh.github.io/scCustomize/
- Size: 306 MB
- Stars: 253
- Watchers: 2
- Forks: 24
- Open Issues: 10
-
Metadata Files:
- Readme: README.md
- Changelog: NEWS.md
- License: LICENSE.md
Awesome Lists containing this project
README
# scCustomize 
[](https://cran.r-project.org/package=scCustomize)
[](https://cran.r-project.org/package=scCustomize)
[](https://github.com/samuel-marsh/scCustomize/actions/workflows/R-CMD-check.yaml)
[](https://github.com/samuel-marsh/scCustomize/blob/master/LICENSE.md)
[](https://github.com/samuel-marsh/scCustomize/issues)
[](https://doi.org/10.5281/zenodo.5706430)
scCustomize is a collection of functions created and/or curated to aid
in the visualization and analysis of single-cell data using R.
## Vignettes/Tutorials
See accompanying [scCustomize
website](https://samuel-marsh.github.io/scCustomize/) for detailed
tutorials of all aspects of scCustomize functionality.
## Installing scCustomize
scCustomize can be installed from
[CRAN](https://cran.r-project.org/package=scCustomize) on all platforms.
For more detailed instructions see
[Installation](https://samuel-marsh.github.io/scCustomize/articles/Installation.html).
# Base R
install.packages("scCustomize")
# Using pak
pak::pkg_install("scCustomize")
## Release Notes
A full copy of the changes in each version can be found in the
[NEWS/ChangeLog](https://samuel-marsh.github.io/scCustomize/news/index.html).
**Develop branch**
I also maintain a separate development branch\* that can be
installed by supplying `ref = "develop"` in the devtools or remotes
installation command. Version scheme vX.X.X.9yyy.
\**Note: While this branch is typically mostly stable it may
contain breaking issues/bugs.*
I do try and keep [development
ChangeLog](https://github.com/samuel-marsh/scCustomize/blob/develop/NEWS.md)
up to date so it’s easier to follow changes than reading commit history.
## Bug Reports/New Features
#### If you run into any issues or bugs please submit a [GitHub issue](https://github.com/samuel-marsh/scCustomize/issues) with details of the issue.
- If possible please include a reproducible example (suggest using
[SeuratData package](https://github.com/satijalab/seurat-data) pbmc
dataset for lightweight examples.)
#### Any requests for new features or enhancements can also be submitted as [GitHub issues](https://github.com/samuel-marsh/scCustomize/issues).
- Even if you don’t know how to implement/incorporate with current
package go ahead a submit!
#### [Pull Requests](https://github.com/samuel-marsh/scCustomize/pulls) are welcome for bug fixes, new features, or enhancements.
- Please set PR to merge with “develop” branch and provide description
of what the PR contains (referencing existing issue(s) if
appropriate).