DamageDetective: Detecting Damaged Cells in Single-Cell RNA Sequencing Data

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.

Version:	1.0.0
Depends:	R (≥ 4.4.0)
Imports:	cowplot, dplyr, ggplot2, ggpubr, Matrix, patchwork, scales, RcppHNSW, rlang, tidyr, withr
Suggests:	Seurat, knitr, rmarkdown, spelling
Published:	2025-04-03
DOI:	10.32614/CRAN.package.DamageDetective
Author:	Alicen Henning [aut, cre, cph]
Maintainer:	Alicen Henning <alicen.jhb at gmail.com>
BugReports:	https://github.com/alicenjoyhenning/DamageDetective/issues
License:	AGPL (≥ 3)
URL:	https://alicenjoyhenning.github.io/DamageDetective/, https://github.com/alicenjoyhenning/DamageDetective
NeedsCompilation:	no
Language:	en-US
Materials:	NEWS
CRAN checks:	DamageDetective results

Documentation:

Reference manual:	DamageDetective.pdf
Vignettes:	Damage cell quality control (source, R code)

Downloads:

Package source:	DamageDetective_1.0.0.tar.gz
Windows binaries:	r-devel: DamageDetective_1.0.0.zip, r-release: DamageDetective_1.0.0.zip, r-oldrel: not available
macOS binaries:	r-devel (arm64): DamageDetective_1.0.0.tgz, r-release (arm64): DamageDetective_1.0.0.tgz, r-oldrel (arm64): not available, r-devel (x86_64): DamageDetective_1.0.0.tgz, r-release (x86_64): DamageDetective_1.0.0.tgz, r-oldrel (x86_64): not available

Linking:

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