Welcome to the new bioconductor.org!

fobitools

This is the development version of fobitools; for the stable release version, see fobitools.

Tools for Manipulating the FOBI Ontology


Bioconductor version: Development (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 gmail.com>

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

Installation

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews Annotation, BiomedicalInformatics, Cheminformatics, GeneSetEnrichment, GraphAndNetwork, MassSpectrometry, Metabolomics, Pathways, Software, Visualization
Version 1.11.4
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
System Requirements
URL https://github.com/pcastellanoescuder/fobitools/
Bug Reports https://github.com/pcastellanoescuder/fobitools/issues
See More
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

Package Archives

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

Source Package fobitools_1.11.4.tar.gz
Windows Binary fobitools_1.11.4.zip
macOS Binary (x86_64) fobitools_1.11.4.tgz
macOS Binary (arm64) fobitools_1.11.4.tgz
Source Repository git clone https://git.bioconductor.org/packages/fobitools
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/fobitools
Bioc Package Browser https://code.bioconductor.org/browse/fobitools/
Package Short Url https://bioconductor.org/packages/fobitools/
Package Downloads Report Download Stats