SCpubr

3.0.1

Generate Publication Ready Visualizations of Single Cell Transcriptomics Data

0packages depend

18.1Kdownloads / year

4.7%test coverage

13/13checks pass

Overview

About

Maintained by Enrique Blanco-CarmonaFirst published 2022-10-1413 releasesCRAN page ↗GitHub ↗

A system that provides a streamlined way of generating publication ready plots for known Single-Cell transcriptomics data in a “publication ready” format. This is, the goal is to automatically generate plots with the highest quality possible, that can be used right away or with minimal modifications for a research article.

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("SCpubr", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("enblacar/SCpubr")

Development version from enblacar/SCpubr. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-scpubr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-SCpubr

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-SCpubr

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 6.0 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.50

4.7%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
13 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 144 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 8%
Documented parameters: 70%
Return-value docs: 100%
References docs: 0%

Downloads

18.1K

CRAN downloads in the past year

Rank #3,584 · ~50/day · ~1.5K/mo

Releases R versions

Daily download trend is not available in this view yet.

93830 days

3K90 days

18.1K1 year

Compare downloads with other packages →

Also on152 r2u2 autocran173 conda_forge

Repository

GitHub ↗ enblacar/scpubr

233Stars

14Forks

2Open issues

0Open PRs

23Releases

763Commits

7Contributors

data-visualizationggplot2publication-quality-plotsrrstatsseuratsingle-cell-genomicssingle-cell-rna-seq

License GPL-3.0 · 763 commits · Last activity 2026-03-02 · +3.1% stars, 30d

Stars over time

2026-07-14 · 2262026-07-29 · 233

Repository practices

Upstream repositoryBeta

5 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/enblacar/scpubr on 2026-07-30.

Continuous integration (1)

GitHub Actions

CRAN release process (3)

cran-comments.mdrevdep/CRAN-SUBMISSION

Governance and community (1)

Issue templates

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

49 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.0.0

Imports (0)

none

LinkingTo (0)

none

Suggests (55)

assertthat circlize cliclustercolorspace ComplexHeatmap covr decoupleR dplyr enrichplot forcats ggalluvial ggbeeswarm ggdist ggExtra ggh4x ggplot2 ggplotify ggrastr ggrepel ggridges ggsignifgraphicsinfercnvKernSmoothknitr labeling magrittrMASSMatrixmethodsNebulosa org.Hs.eg.db patchwork pheatmap plyr purrr qpdf RColorBrewer rjags rlang rmarkdown scales scattermore Seurat SeuratObject sf stringr svglite testthat (>= 3.0.0)tibble tidyr UCell viridis withr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Enrique Blanco-Carmona

Maintainer, Author

Authors (1)

Enrique Blanco-Carmona

Maintainer, Author

Package Timeline

13 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
3.0.1Latest
2026-01-09 · current release · diff ↗
3.0.0
2025-08-20 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
2.0.2
2023-10-11 · diff ↗
2.0.1
2023-08-13 · diff ↗
2.0.0
2023-08-10 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.1.2
2023-01-18 · diff ↗
1.1.1
2023-01-12 · diff ↗
1.1.0
2023-01-11 · diff ↗
1.0.4
2022-11-07 · diff ↗
1.0.3
2022-11-07 · diff ↗
1.0.2
2022-10-25 · diff ↗
1.0.1
2022-10-17 · diff ↗

Show 2 earlier events

1.0.0
2022-10-14
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-10-14
Total releases: 13 / 4 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.0.0
Bundled data: 0.6 KB / 1 file
Download size: 1.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Report a problem with this page →