MetMashR
Bioc currentMetabolite Mashing with R
Release Lineage
Entered 3.20 · Oct 30, 2024
Current · Requires R 4.6
Description
A package to merge, filter sort, organise and otherwise mash together metabolite annotation tables. Metabolite annotations can be imported from multiple sources (software) and combined using workflow steps based on S4 class templates derived from the `struct` package. Other modular workflow steps such as filtering, merging, splitting, normalisation and rest-api queries are included.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
116 91 exported
Complexity
2 avg / 8 max
Call network
116 nodes / 5 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
23,424
Files
248
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
94
Internal functions
25
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.29
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.3.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
4
First release
2024-10-29
Latest release
2026-04-28
Avg cadence
181 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
- 89 (1 internal)includes a package overview page
- Examples that run
- 99%87 run in a plain check · 1 never run
- Exported functions with examples
- 100%
- Documented parameters
- 98%
- Return-value docs
- 100%
- Help pages citing references
- 45%
Repository practices
7 development-tooling and community-health practices detected across 4 families in the upstream repository
Checks run against github.com/computational-metabolomics/metmashr on 2026-10-21.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
GitHub Pages site last deployed 2026-10-12 · The repository has a site deploy workflow
pkgdown site last built 2026-10-12
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| AN000465_subset | data.frame | 10 × 8 | No other package |
| MTox_2023_HILIC_NEG | – | – | – |
| MTox_2023_HILIC_POS | – | – | – |
| MTox_2023_LIPIDS_NEG | – | – | – |
| MTox_2023_LIPIDS_POS | – | – | – |
| standard_mixtures | data.frame | 1,156 × 10 | No other package |
1 internal object is bundled for the package's own use and not listed here.
Topics
People
- Gavin Rhys Lloyd author maintainer
- Ralf Johannes Maria Weber author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("MetMashR")This package has no citation file, so citation() returns this entry built from DESCRIPTION.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.