fobitools

This is the released version of fobitools; for the devel version, see fobitools.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13

Tools for Manipulating the FOBI Ontology

Bioconductor version: Release (3.23)

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] ORCID: 0000-0001-6466-877X , Alex Sánchez-Pla [aut] ORCID: 0000-0002-8673-7737

Maintainer: Pol Castellano-Escuder <polcaes at gmail.com>

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

Pol Castellano-Escuder, Alex Sánchez-Pla. fobitools: Tools for Manipulating the FOBI Ontology. doi:10.18129/B9.bioc.fobitools, R package version 1.20.0, https://bioconductor.org/packages/fobitools.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("fobitools")

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

Documentation

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

browseVignettes("fobitools")

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
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Annotation, BiomedicalInformatics, Cheminformatics, GeneSetEnrichment, GraphAndNetwork, MassSpectrometry, Metabolomics, Pathways, Software, Visualization
Version	1.20.0
In Bioconductor since	BioC 3.13 (R-4.1) (5.5 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
System Requirements
URL	https://github.com/pcastellanoescuder/fobitools/
Bug Reports	https://github.com/pcastellanoescuder/fobitools/issues

Suggests	BiocStyle, covr, ggrepel, kableExtra, knitr, metabolomicsWorkbenchR, POMA, rmarkdown, rvest, SummarizedExperiment, testthat (>= 2.3.2), tidyverse
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	fobitools_1.20.0.tar.gz
Windows Binary (x86_64)	fobitools_1.20.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	fobitools_1.20.0.tgz
macOS Binary (sonoma-arm64)	fobitools_1.20.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/fobitools
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/fobitools
Package Short Url	https://bioconductor.org/packages/fobitools/
Package Downloads Report	Download Stats