MsExperiment
Bioc currentInfrastructure for Mass Spectrometry Experiments
Release Lineage
Entered 3.16 · Nov 2, 2022
Current · Requires R 4.6
Description
Infrastructure to store and manage all aspects related to a complete proteomics or metabolomics mass spectrometry (MS) experiment. The MsExperiment package provides light-weight and flexible containers for MS experiments building on the new MS infrastructure provided by the Spectra, QFeatures and related packages. Along with raw data representations, links to original data files and sample annotations, additional metadata or annotations can also be stored within the MsExperiment container. To guarantee maximum flexibility only minimal constraints are put on the type and content of the data within the containers.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
33 15 exported
Complexity
3.2 avg / 11 max
Call network
33 nodes / 25 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
3,691
Files
31
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
15
Internal functions
18
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.55
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
No
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
11.1%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.2
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
8
First release
2022-11-01
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
2
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
- 96%
- Return-value docs
- 75%
- References docs
- 0%
Topics
Depended on by (4)
People
- Laurent Gatto author maintainer
- Tuomas Borman contributor
- Sebastian Gibb author
- Johannes Rainer author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MsExperiment")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.