MSstats
Bioc currentProtein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics Experiments
Release Lineage
Entered 2.13 · Oct 15, 2013
Current · Requires R 4.6
Description
A set of tools for statistical relative protein significance analysis in DDA, SRM and DIA experiments.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
179 35 exported
Complexity
3.6 avg / 24 max
Call network
179 nodes / 176 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
13,166
Files
405
Compiled share
3.1%
Has compiled src
Yes
Language breakdown
API
Exported functions
45
Internal functions
123
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
CI present
Yes
CI type
["github-actions","travis"]
PR gated
Yes
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
4.3%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0
System requirements
–
C++ standard
C++11
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
26
First release
2014-02-04
Latest release
2026-04-28
Avg cadence
185 days
Cold removal rate
100%
Dep drift
54
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 97%
- Documented parameters
- 99%
- Return-value docs
- 69%
- References docs
- 2%
Topics
Depended on by (11)
People
- Meena Choi author maintainer
- Ting Huang author
- Devon Kohler author
- Deril Raju author
- Mateusz Staniak author
- Tsung-Heng Tsai author
- Olga Vitek author
- Tony Wu author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MSstats")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 v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.