fobitools
This is the development version of fobitools; for the stable release version, see fobitools.
Tools for Manipulating the FOBI Ontology
Bioconductor version: Development (3.21)
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:
Maintainer: Pol Castellano-Escuder <polcaes at gmail.com>
citation("fobitools")):
Installation
To install this package, start R (version "4.5") 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 | ||
| NEWS | Text |
Details
| biocViews | Annotation, BiomedicalInformatics, Cheminformatics, GeneSetEnrichment, GraphAndNetwork, MassSpectrometry, Metabolomics, Pathways, Software, Visualization |
| Version | 1.15.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3.5 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 |
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_1.15.0.tar.gz |
| Windows Binary (x86_64) | fobitools_1.15.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/fobitools |
| Source Repository (Developer Access) | git clone [email protected]:packages/fobitools |
| Bioc Package Browser | https://code.bioconductor.org/browse/fobitools/ |
| Package Short Url | https://bioconductor.org/packages/fobitools/ |
| Package Downloads Report | Download Stats |