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fobitools

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

Tools For Manipulating FOBI Ontology

Bioconductor version: Development (3.18)

A set of tools for interacting with 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] , Cristina Andrés-Lacueva [aut] , 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 "4.3") 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 1.9.0
In Bioconductor since BioC 3.13 (R-4.1) (2 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
Linking To
Suggests BiocStyle, covr, ggrepel, kableExtra, knitr, metabolomicsWorkbenchR, POMA, rmarkdown, rvest, SummarizedExperiment, testthat (>= 2.3.2), tidyverse
System Requirements
Enhances
URL https://github.com/pcastellanoescuder/fobitools/
Bug Reports https://github.com/pcastellanoescuder/fobitools/issues
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package fobitools_1.9.0.tar.gz
Windows Binary fobitools_1.9.0.zip
macOS Binary (x86_64) fobitools_1.9.0.tgz
macOS Binary (arm64) fobitools_1.9.0.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