https://github.com/enblacar/scpubr
Generate high quality, publication ready visualizations for single cell transcriptomics data.
https://github.com/enblacar/scpubr
data-visualization ggplot2 publication-quality-plots r rstats seurat single-cell single-cell-genomics single-cell-rna-seq visualization
Last synced: 4 months ago
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Generate high quality, publication ready visualizations for single cell transcriptomics data.
- Host: GitHub
- URL: https://github.com/enblacar/scpubr
- Owner: enblacar
- License: gpl-3.0
- Created: 2021-12-21T11:17:33.000Z (almost 4 years ago)
- Default Branch: main
- Last Pushed: 2025-05-25T19:09:32.000Z (5 months ago)
- Last Synced: 2025-06-24T03:01:52.445Z (4 months ago)
- Topics: data-visualization, ggplot2, publication-quality-plots, r, rstats, seurat, single-cell, single-cell-genomics, single-cell-rna-seq, visualization
- Language: R
- Homepage: https://enblacar.github.io/SCpubr-book/
- Size: 88.2 MB
- Stars: 198
- Watchers: 4
- Forks: 13
- Open Issues: 2
-
Metadata Files:
- Readme: README.md
- Changelog: NEWS.md
- License: LICENSE.md
Awesome Lists containing this project
README
# SCpubr 
[](https://CRAN.R-project.org/package=SCpubr)
[](https://github.com/enblacar/SCpubr/actions/workflows/R-CMD-check.yaml)
[](https://app.codecov.io/gh/enblacar/SCpubr/)
[](https://www.codefactor.io/repository/github/enblacar/scpubr/overview/main)
[](https://cran.r-project.org/package=SCpubr)
This package aims to provide a streamlined way of generating publication ready plots for known **S**ingle-**C**ell visualizations in a "**pub**lication **r**eady" format (**SCpubr**). This is, the aim is to automatically generate plots with the highest quality possible, that can be used right away or with minimal modifications for a research article.
## Installation
**SCpubr** can be installed via:
```r
# From CRAN - Official release:
install.packages("SCpubr")
# From GitHub - Latest stable development version:
if(!requireNamespace("devtools", quietly = TRUE)){
install.packages("devtools") # If not installed.
}
devtools::install_github("enblacar/SCpubr", ref = "v2.0.0-dev-stable")
```
By default, **SCpubr** downloads without installing any of the required dependencies. A comprehensive report of which dependencies are still missing and which functions can be run is available through:
```r
SCpubr::package_report(extended = TRUE)
```
For tutorials, check **SCpubr**'s [reference manual](https://enblacar.github.io/SCpubr-book/).
## Updates
`SCpubr` is an active package currently aiming to improve and add new functionalities.
Keep track of our new updates in the [NEWS page](https://github.com/enblacar/SCpubr/blob/master/NEWS.md)!
## Citation
To cite `SCpubr` in your publications, please use:
```
Blanco-Carmona, E. Generating publication ready visualizations
for Single Cell transcriptomics using SCpubr. bioRxiv (2022)
doi:10.1101/2022.02.28.482303.
```
## Contact
`scpubr@gmail.com`