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Tools for Manipulating the FOBI Ontology

Bioconductor version: Release (3.19)

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.

Author: Pol Castellano-Escuder [aut, cre] , Alex Sánchez-Pla [aut]

Maintainer: Pol Castellano-Escuder <polcaes at>

Citation (from within R, enter citation("fobitools")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Dietary text annotation HTML R Script
Simple food ORA HTML R Script
Use case ST000291 HTML R Script
Use case ST000629 HTML R Script
Reference Manual PDF


biocViews Annotation, BiomedicalInformatics, Cheminformatics, GeneSetEnrichment, GraphAndNetwork, MassSpectrometry, Metabolomics, Pathways, Software, Visualization
Version 1.12.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-3
Depends R (>= 4.1)
Imports clisymbols, crayon, dplyr, fgsea, ggplot2, ggraph, magrittr, ontologyIndex, purrr, RecordLinkage, stringr, textclean, tictoc, tidygraph, tidyr, vroom
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Suggests BiocStyle, covr, ggrepel, kableExtra, knitr, metabolomicsWorkbenchR, POMA, rmarkdown, rvest, SummarizedExperiment, testthat (>= 2.3.2), tidyverse
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Follow Installation instructions to use this package in your R session.

Source Package fobitools_1.12.0.tar.gz
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macOS Binary (x86_64) fobitools_1.12.0.tgz
macOS Binary (arm64) fobitools_1.12.0.tgz
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