fobitools

DOI: 10.18129/B9.bioc.fobitools    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see fobitools.

Tools For Manipulating FOBI Ontology

Bioconductor version: 3.15

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>

Installation

To install this package, start R (version "4.2") 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")

 

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

Details

biocViews	Annotation, BiomedicalInformatics, Cheminformatics, GeneSetEnrichment, GraphAndNetwork, MassSpectrometry, Metabolomics, Pathways, Software, Visualization
Version	1.4.0
In Bioconductor since	BioC 3.13 (R-4.1) (1.5 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
LinkingTo
Suggests	BiocStyle, covr, ggrepel, kableExtra, knitr, metabolomicsWorkbenchR, POMA, rmarkdown, rvest, SummarizedExperiment, testthat (>= 2.3.2), tidyverse
SystemRequirements
Enhances
URL	https://github.com/pcastellanoescuder/fobitools/
BugReports	https://github.com/pcastellanoescuder/fobitools/issues
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_1.4.0.tar.gz
Windows Binary	fobitools_1.4.0.zip (64-bit only)
macOS Binary (x86_64)	fobitools_1.4.0.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