R Observatory: Metrics for DropletUtils version 1.32.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

DropletUtils

Bioc current

Utilities for Handling Single-Cell Droplet Data

v1.32.0 · software · GPL-3

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.7 · May 1, 2018

Current · Requires R 4.6

1.0 In 17 of 49 releases 3.23

Description

Provides a number of utility functions for handling single-cell (RNA-seq) data from droplet technologies such as 10X Genomics. This includes data loading from count matrices or molecule information files, identification of cells from empty droplets, removal of barcode-swapped pseudo-cells, and downsampling of the count matrix.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

118 16 exported

Complexity

3.6 avg / 20 max

Call network

118 nodes / 98 edges

Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.

Call graph

Open call graph →

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Lowest coverage

Per-function coverage is not measured for this package yet.

Code

Structure

Lines of code

10,488

Files

97

Compiled share

14%

Has compiled src

Yes

Language breakdown

R 3,979 (37.9%)C/C++/src 1,467 (14%)Tests 2,294 (21.9%)Docs 2,442 (23.3%)Vignettes 306 (2.9%)

API

Exported functions

30

Internal functions

61

Recent export changes

v3.9−1 read10xMatrix

v3.8+3 encodeSequences, get10xMolInfoStats, removeSwappedDrops

Testing & CI

Has tests

Yes

Test-to-code ratio

0.58

testthat edition

–

CI present

Yes

CI type

["github-actions"]

PR gated

Yes

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

100%

Unsafe pattern score

0

Dep constraint coverage

13.6%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

–

System requirements

2

C++ standard

–

License

GPL-3

License flags

SPDX valid, OSI approved

History

Versions

17

First release

2018-08-07

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

100%

Dep drift

12

LOC over versions

Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.

Documentation

READMEYes · 70 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 96%
Return-value docs: 95%
References docs: 50%

Topics

Software › ResearchField › Immunology › ImmunoOncology

Software › Technology › SingleCell

Software › Technology › Sequencing

Software › Technology › Sequencing › RNASeq

Software › AssayDomain › GeneExpression

Software › ResearchField › Transcriptomics

Software › Infrastructure › DataImport

Software › BiologicalQuestion › Coverage

Depended on by (37)

CRAN (3)

SoupX nemoR scCustomize

People

Jonathan Griffiths contributor maintainer
Dongze He contributor
Aaron Lun author
Davis McCarthy contributor
Rob Patro contributor

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("DropletUtils")

Format

Griffiths, J., He, D., Lun, A., McCarthy, D., & Patro, R. (2026). DropletUtils: Utilities for Handling Single-Cell Droplet Data (Version 1.32.0) [Computer software]. https://bioconductor.org/packages/DropletUtils

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 DropletUtils version 1.32.0 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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