DropletUtils
Bioc currentUtilities for Handling Single-Cell Droplet Data
Release Lineage
Entered 3.7 · May 1, 2018
Current · Requires R 4.6
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.
None published for Bioconductor
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 →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
10,582
Files
96
Compiled share
14.3%
Has compiled src
Yes
Language breakdown
API
Exported functions
30
Internal functions
61
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.59
testthat edition
–
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 externalC++17, GNU make
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
17
First release
2018-08-07
Latest release
2026-09-25
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
- Help pages
- 22 (1 internal)
- Examples that run
- 100%21 run in a plain check
- Exported functions with examples
- 95%
- Documented parameters
- 96%
- Return-value docs
- 95%
- Help pages citing references
- 50%
- Bugfix to
read10xCounts()whenmtx.class = "SVT_SparseMatrix", to generate a valid SVT_SparseMatrix from a Matrix Market file containing empty columns.
From inst/NEWS.Rd in the release
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
2 practices detected in the Bioconductor git repository
Topics
Depended on by (17)
Show all 38 packagesHide all 38 packages
Bioconductor (17)
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' entry:
citation("DropletUtils")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1186/s13059-019-1662-y, 10.1038/s41467-018-05083-x.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.