MsCoreUtils
Bioc currentCore Utils for Mass Spectrometry Data
Release Lineage
Entered 3.11 · Apr 28, 2020
Current · Requires R 4.6
Description
MsCoreUtils defines low-level functions for mass spectrometry data and is independent of any high-level data structures. These functions include mass spectra processing functions (noise estimation, smoothing, binning, baseline estimation), quantitative aggregation functions (median polish, robust summarisation, ...), missing data imputation, data normalisation (quantiles, vsn, ...), misc helper functions, that are used across high-level data structure within the R for Mass Spectrometry packages.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
123 78 exported
Complexity
3.2 avg / 22 max
Call network
123 nodes / 100 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
13,341
Files
131
Compiled share
16.6%
Has compiled src
Yes
Language breakdown
API
Exported functions
79
Internal functions
13
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
1.11
testthat edition
–
Docs
Roxygen coverage
98.7%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
100%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.6.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
13
First release
2020-04-27
Latest release
2026-04-28
Avg cadence
186 days
Cold removal rate
100%
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 38 (1 internal)
- Examples that run
- 97%37 run in a plain check · 1 never run
- Exported functions with examples
- 100%
- Documented parameters
- 98%
- Return-value docs
- 92%
- Help pages citing references
- 18%
Repository practices
7 development-tooling and community-health practices detected across 4 families in the upstream repository
Checks run against github.com/rformassspectrometry/mscoreutils on 2026-10-11.
The R CMD check workflow runs on Linux and macOS, and on R-devel
GitHub Pages site last deployed 2026-05-11 · The repository has a site deploy workflow
Topics
Depended on by (29)
Show all 32 packagesHide all 32 packages
Bioconductor (29)
People
- RforMassSpectrometry Package Maintainer maintainer
- Josep Maria Badia Aparicio contributor
- Mar Garcia-Aloy contributor
- Laurent Gatto author
- Sebastian Gibb author
- Roger Gine Bertomeu contributor
- Philippine Louail author
- Thomas Naake contributor
- Johannes Rainer author
- Adriano Rutz author
- Sigurdur Smarason contributor
- Adriaan Sticker contributor
- Gabriele Tomè contributor
- Samuel Wieczorek contributor
- Michael Witting contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("MsCoreUtils")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.3390/metabo12020173.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.