SomaticSignatures
Bioc currentSomatic Signatures
Release Lineage
Entered 2.14 · Apr 14, 2014
Current · Requires R 4.6
Description
The SomaticSignatures package identifies mutational signatures of single nucleotide variants (SNVs). It provides a infrastructure related to the methodology described in Nik-Zainal (2012, Cell), with flexibility in the matrix decomposition algorithms.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
50 32 exported
Complexity
1.7 avg / 8 max
Call network
50 nodes / 30 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
5,544
Files
63
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
32
Internal functions
18
Testing & CI
Has tests
Yes
Test-to-code ratio
0.32
testthat edition
–
CI present
Yes
CI type
["travis"]
PR gated
No
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.1.0
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
25
First release
2014-05-11
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
7
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 99%
- Return-value docs
- 100%
- References docs
- 20%
Topics
Depended on by (2)
People
Julian Gehring
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("SomaticSignatures")Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.