HoloFoodR

This is the development version of HoloFoodR; to use it, please install the devel version of Bioconductor.

R interface to EBI HoloFood resource


Bioconductor version: Development (3.20)

Utility package to facilitate integration and analysis of EBI HoloFood data in R. This package streamlines access to the resource, allowing for direct loading of data into formats optimized for downstream analytics.

Author: Tuomas Borman [aut, cre] , Leo Lahti [aut]

Maintainer: Tuomas Borman <tuomas.v.borman at utu.fi>

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

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("HoloFoodR")

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("HoloFoodR")
HoloFoodR HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews DataImport, Infrastructure, Software
Version 0.99.8
In Bioconductor since BioC 3.20 (R-4.4)
License Artistic-2.0 | file LICENSE
Depends R (>= 4.4.0), TreeSummarizedExperiment, MultiAssayExperiment
Imports dplyr, httr2, jsonlite, S4Vectors, stats, utils
System Requirements
URL https://github.com/EBI-Metagenomics/HoloFoodR
Bug Reports https://github.com/EBI-Metagenomics/HoloFoodR/issues
See More
Suggests testthat, knitr, rmarkdown, BiocStyle
Linking To
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Depends On Me
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Build Report Build Report

Package Archives

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

Source Package HoloFoodR_0.99.8.tar.gz
Windows Binary HoloFoodR_0.99.8.zip
macOS Binary (x86_64) HoloFoodR_0.99.8.tgz
macOS Binary (arm64) HoloFoodR_0.99.8.tgz
Source Repository git clone https://git.bioconductor.org/packages/HoloFoodR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/HoloFoodR
Bioc Package Browser https://code.bioconductor.org/browse/HoloFoodR/
Package Short Url https://bioconductor.org/packages/HoloFoodR/
Package Downloads Report Download Stats