HoloFoodR
R interface to EBI HoloFood resource
Bioconductor version: 3.23 · Package version: 1.6.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HoloFoodR")Details
| Maintainer | Tuomas Borman <tuomas.v.borman@utu.fi> |
| Author | Tuomas Borman [aut, cre] (ORCID: <https://orcid.org/0000-0002-8563-8884>), Artur Sannikov [aut] (ORCID: <https://orcid.org/0000-0001-7765-123X>), Leo Lahti [aut] (ORCID: <https://orcid.org/0000-0001-5537-637X>) |
| License | Artistic-2.0 | file LICENSE |
| URL | https://github.com/EBI-Metagenomics/HoloFoodR |
| Bug Reports | https://github.com/EBI-Metagenomics/HoloFoodR/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | DataImport, Infrastructure, Microbiome, MicrobiomeData, Software |
| Package Short Url | https://bioconductor.org/packages/HoloFoodR/ |
Citation
From within R, enter citation("HoloFoodR"):
Tuomas Borman, Artur Sannikov, Leo Lahti. HoloFoodR: R interface to EBI HoloFood resource. doi:10.18129/B9.bioc.HoloFoodR, R package version 1.6.0, https://bioconductor.org/packages/HoloFoodR.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | HoloFoodR_1.6.0.tar.gz |
| Windows binary (x86_64) | HoloFoodR_1.6.0.zip |
| macOS binary (arm64) | HoloFoodR_1.6.0.tgz |
| macOS binary (x86_64) | HoloFoodR_1.6.0.tgz |
Dependencies
Depends: R (>= 4.4.0), MultiAssayExperiment, TreeSummarizedExperiment
Imports: dplyr, httr2, jsonlite, S4Vectors, stringi, stats, SummarizedExperiment, utils
Suggests: BiocStyle, DT, ggh4x, ggsignif, knitr, MGnifyR, mia, miaViz, MOFA2, patchwork, reticulate, rmarkdown, scater, shadowtext, testthat, UpSetR