BiocSingular
Bioc currentSingular Value Decomposition for Bioconductor Packages
Release Lineage
Entered 3.9 · May 3, 2019
Current · Requires R 4.6
Description
Implements exact and approximate methods for singular value decomposition and principal components analysis, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Where possible, parallelization is achieved using the BiocParallel framework.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
47 16 exported
Complexity
2.2 avg / 8 max
Call network
47 nodes / 43 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
2,942
Files
45
Compiled share
11%
Has compiled src
Yes
Language breakdown
API
Exported functions
18
Internal functions
22
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
1.38
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
8.3%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
–
System requirements
1 externalC++17
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
15
First release
2019-05-02
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
2
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 10
- Examples that run
- 100%7 run in a plain check
- Exported functions with examples
- 78%
- Documented parameters
- 99%
- Return-value docs
- 89%
- Help pages citing references
- 0%
- 1. SVD and PCA HTML
- 2. Matrix classes HTML
- Bugfix for
center=TRUEandscale=TRUEwhen there are fewer than two rows.
From inst/NEWS.Rd in the release
Repository practices
1 development-tooling and community-health practice detected across 1 family in the upstream repository
Checks run against github.com/ltla/biocsingular on 2026-10-11.
The repository owner accepts GitHub Sponsors
Topics
Depended on by (31)
Show 41 packagesHide 41 packages
Bioconductor (31)
People
- Aaron Lun author maintainer copyright holder
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("BiocSingular")This package has no citation file, so citation() returns this entry built from DESCRIPTION.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.