R Observatory: Metrics for cellGeometry version 0.6.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

cellGeometry

0.6.3

Geometric Single Cell Deconvolution

0packages depend

27.2Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Myles LewisFirst published 2025-09-154 releasesCRAN page ↗GitHub ↗

Deconvolution of bulk RNA-Sequencing data into proportions of cells based on a reference single-cell RNA-Sequencing dataset using high-dimensional geometric methodology doi:10.64898/2026.01.24.701240.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("cellGeometry", 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("myles-lewis/cellGeometry")

Development version from myles-lewis/cellGeometry. 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-cellgeometry

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

Health

CRAN checks

13OK

Slowest check: 10.2 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

14

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-27
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-21
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 10 earlier snapshots

ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-06-04
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-28
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-10
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-03
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-16
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-09
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-28
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-21
12 OK · 0 NOTE · 0 WARNING · 2 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 1,293 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 98%
Return-value docs: 100%
References docs: 0%

Downloads

27.2K

CRAN downloads in the past year

Rank #7,188 · ~74/day · ~2.3K/mo

Releases R versions

Daily download trend is not available in this view yet.

26330 days

1.2K90 days

27.2K1 year

Compare downloads with other packages →

Also on319 r2u

Repository

GitHub ↗ myles-lewis/cellgeometry

18Stars

1Forks

0Open issues

0Open PRs

3Releases

750Commits

2Contributors

License GPL-3.0 · 750 commits · Last activity 2026-04-20 · +5.9% stars, 30d

Stars over time

2025-09-03 · 12026-08-01 · 18

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/myles-lewis/cellgeometry on 2026-08-16.

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Git structural (1)

.gitattributes

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

Dependencies

Declared dependencies

21 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (14)

circlize ComplexHeatmap DelayedArray dplyr ensembldb ggplot2 ggrepelgridgtools matrixStats mcprogressparallelrlang scales

LinkingTo (0)

none

Suggests (9)

future.apply ggforce ggsci knitr plotly Rfast2 rmarkdown seriation tidyr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (2)

Maintainer (1)

Myles Lewis

Author, Maintainer

Authors (1)

Myles Lewis

Author, Maintainer

Contributors (1)

Rachel Lau

Contributor

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
0.6.3Latest
2026-04-20 · current release · diff ↗
0.6.2
2026-03-19 · diff ↗
0.5.7
2025-12-11 · diff ↗
0.5.4
2025-09-15
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-09-15
Total releases: 4 / 1 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 4.1.0
Download size: 3.6 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("cellGeometry")

Format

Lewis, M., & Lau, R. (2026). cellGeometry: Geometric Single Cell Deconvolution (Version 0.6.3) [Computer software]. https://doi.org/10.32614/CRAN.package.cellGeometry

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for cellGeometry version 0.6.3 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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