fobitools
Bioc currentTools for Manipulating the FOBI Ontology
Release Lineage
Entered 3.13 · May 20, 2021
Current · Requires R 4.6
Description
A set of tools for interacting with the Food-Biomarker Ontology (FOBI). A collection of basic manipulation tools for biological significance analysis, graphs, and text mining strategies for annotating nutritional data.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
6 6 exported
Complexity
9.7 avg / 14 max
Call network
6 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
2,729
Files
56
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
7
Internal functions
0
Testing
Has tests
Yes
Test-to-code ratio
0.23
testthat edition
–
Docs
Roxygen coverage
85.7%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
11
First release
2021-10-04
Latest release
2026-04-28
Avg cadence
182 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
- Help pages
- 11 (1 internal)
- Examples that run
- 100%6 run in a plain check
- Exported functions with examples
- 86%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 55%
- Dietary text annotation HTML
- Simple food ORA HTML
- Use case ST000291 HTML
- Use case ST000629 HTML
Repository practices
6 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/pcastellanoescuder/fobitools on 2026-10-18.
The R CMD check workflow runs on Linux, macOS and Windows
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| fobi | tibble | 6,575 × 16 | No other package |
| fobi_terms | ontology_index | 6 elements | No other package |
| foods | tibble | 568 × 16 | No other package |
| idmap | tibble | 697 × 8 | No other package |
Topics
People
- Pol Castellano-Escuder author maintainer
- Alex Sánchez-Pla author
Cite
Cite this package
Run in R for the authors' entry:
citation("fobitools")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1093/databa/baaa033.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.