notame
Bioc currentWorkflow for non-targeted LC-MS metabolic profiling
Release Lineage
Entered 3.22 · Oct 30, 2025
Current · Requires R 4.6
Description
Provides functionality for untargeted LC-MS metabolomics research as specified in the associated protocol article in the 'Metabolomics Data Processing and Data Analysis—Current Best Practices' special issue of the Metabolites journal (2020). This includes tabular data preprocessing and quality control, uni- and multivariate analysis as well as quality control visualizations, feature-wise visualizations and results visualizations. Raw data preprocessing and functionality related to biological context, such as pathway analysis, is not included.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
89 34 exported
Complexity
3.1 avg / 24 max
Call network
89 nodes / 140 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
6,220
Files
86
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
34
Internal functions
54
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.19
testthat edition
–
CI present
Yes
CI type
["github-actions"]
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
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
2
First release
2025-12-12
Latest release
2026-04-28
Avg cadence
137 days
Cold removal rate
–
Dep drift
0
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
- 98%
- Return-value docs
- 100%
- References docs
- 6%
Topics
Depended on by (2)
Bioconductor (2)
People
- Vilhelm Suksi author maintainer
- Retu Haikonen author
- Kati Hanhineva author
- Anton Klåvus author cph
- Ville Koistinen contributor
- Olli Kärkkäinen contributor
- Leo Lahti author
- Atte Lihtamo author
- Jussi Paananen author cph
- Artur Sannikov contributor
- Oskari Timonen author cph
Cite
Cite this package
Run in R for the authors' preferred citation:
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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.