KEGGemUP

Creating, Rendering, and Mapping Omics Data on KEGG Pathway Graphs

Bioconductor version: 3.24 · Package version: 0.99.1

KEGGemUP retrieves and renders interactively KEGG pathway graphs. The retrieval makes full use of the caching functionality to avoid unnecessary download processes. The interactivity of the graph is warranted via the visNetwork interface to the vis.js library, fully supporting bindings to be used in Shiny for further operations.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("KEGGemUP")

Details

Maintainer	Federico Marini <marinif@uni-mainz.de>
Author	Edoardo Filippi [aut] (ORCID: <https://orcid.org/0009-0003-9858-0137>), Myriam Meineck [ctb] (ORCID: <https://orcid.org/0000-0002-3243-2540>), Paul Classen [ctb] (ORCID: <https://orcid.org/0000-0002-9410-0525>), Julia Weinmann-Menke [fnd] (ORCID: <https://orcid.org/0000-0001-7344-8381>), Federico Marini [aut, cre] (ORCID: <https://orcid.org/0000-0003-3252-7758>)
License	MIT + file LICENSE
URL	https://github.com/imbeimainz/KEGGemUP
Bug Reports	https://github.com/imbeimainz/KEGGemUP/issues
Downloads rank	30
Source branch	devel
biocViews	DifferentialExpression, GraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Proteomics, Software, SystemsBiology, Transcriptomics, Visualization

Documentation

The KEGGemUP User's Guide

Download

Follow the installation instructions to use this package in your R session.

Source package	KEGGemUP_0.99.1.tar.gz
macOS binary (arm64)	KEGGemUP_0.99.1.tgz

Dependencies

Depends: R (>= 4.5.0)

Imports: BiocFileCache, httr2, ggplot2, rlang, methods, igraph, scales, KEGGREST, visNetwork, RColorBrewer, htmlwidgets, xml2, grDevices, stats, tools, utils

Suggests: knitr, rmarkdown, BiocStyle, testthat (>= 3.0.0)