R Observatory: Metrics for DamageDetective version 1.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

DamageDetective

1.0.0

Detecting Damaged Cells in Single-Cell RNA Sequencing Data

0packages depend

2Kdownloads / year

0.0%test coverage

13/13checks pass

Overview

About

Maintained by Alicen HenningFirst published 2025-04-031 releasesCRAN page ↗GitHub ↗

Detects and filters damaged cells in single-cell RNA sequencing (scRNA-seq) data using a novel approach inspired by 'DoubletFinder'. Damage is detected by measuring the extent to which cells deviate from artificially damaged profiles of themselves, simulated through the probabilistic escape of cytoplasmic RNA. As output, a damage score ranging from 0 to 1 is given for each cell providing an intuitive scale for filtering that is standardised across cell types, samples, and experiments.

Install

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

install.packages("DamageDetective", 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("alicenjoyhenning/DamageDetective")

Development version from alicenjoyhenning/DamageDetective. 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-damagedetective

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-DamageDetective

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-DamageDetective

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

Health

CRAN checks

13OK

Slowest check: 8.2 min · r-release-macos-x86_64

Code health

Yes

Tests · ratio 0.00

0.0%

Coverage · measured lines

100%

Documentation · exports

11

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-04-09
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 10%

Downloads

2K

CRAN downloads in the past year

Rank #18,673 · ~5/day · ~164/mo

Releases R versions

Daily download trend is not available in this view yet.

17330 days

58490 days

2K1 year

Compare downloads with other packages →

Also on103 r2u3 autocran

Repository

GitHub ↗ alicenjoyhenning/damagedetective

3Stars

0Forks

1Open issues

0Open PRs

1Releases

165Commits

1Contributors

License AGPL-3.0 · 165 commits · Last activity 2025-10-19 · 0% stars, 30d

Stars over time

2025-05-27 · 12026-07-07 · 3

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/alicenjoyhenning/damagedetective on 2026-08-16.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

14 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.4.0

Imports (11)

cowplot dplyr ggplot2 ggpubrMatrixpatchwork scales RcppHNSW rlang tidyr withr

LinkingTo (0)

none

Suggests (4)

Seurat knitr rmarkdown spelling

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Maintainer (1)

Alicen Henning

Author, Maintainer, Copyright holder

Authors (1)

Alicen Henning

Author, Maintainer, Copyright holder

Copyright holders (1)

Alicen Henning

Author, Maintainer, Copyright holder

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-04-03
Total releases: 1 / 1 yrs
License: AGPL (>= 3) OSI
Minimum R: ≥ 4.4.0
Bundled data: 506 KB / 1 file
Download size: 814 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("DamageDetective")

Format

Henning, A. (2025). DamageDetective: Detecting Damaged Cells in Single-Cell RNA Sequencing Data (Version 1.0.0) [Computer software]. https://doi.org/10.32614/CRAN.package.DamageDetective

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 DamageDetective version 1.0.0 [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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