MutSeqR
Bioc currentAnalysis of Error-Corrected Sequencing Data for Mutation Detection
Release Lineage
Entered 3.23 · Apr 29, 2026
Current · Requires R 4.6
Description
Standard methods for analysis of mutation data following error- corrected sequencing (ECS) for the purpose of mutagencity assessment. Functions include importing the mutation lists provided by a variant caller, and a set of analytical tools for statistical testing and visualization of mutation data; comparison to COSMIC and/or germline signatures; etc.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
132 34 exported
Complexity
30.1 avg / 387 max
Call network
132 nodes / 222 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
33,433
Files
169
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
41
Internal functions
98
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.03
testthat edition
3
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
97.6%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
10%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.5.0
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
1
First release
2026-04-28
Latest release
2026-04-28
Avg cadence
–
Cold removal rate
–
Dep drift
0
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 97%
- Documented parameters
- 100%
- Return-value docs
- 85%
- References docs
- 0%
Topics
People
- Matthew J. Meier author maintainer
- Burroughs Wellcome Fund fnd
- Canada Research Chairs Program fnd
- Health Canada's Genomics Research and Development Initiative fnd
- Christopher Bradley author
- Annette E. Dodge author
- Elena Esina author
- Danielle P.M. LeBlanc author
- Francesco Marchetti author
- Alexander Y. Maslov author
- Geronimo Matteo contributor
- Jesse J. Salk author
- David M. Schuster author
- Clint C. Valentine author
- Andrew Williams author
- Carole L. Yauk author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MutSeqR")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.
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.