MetaboSignal
MetaboSignal: a network-based approach to overlay and explore metabolic and signaling KEGG pathways
Bioconductor version: Release (3.20)
MetaboSignal is an R package that allows merging, analyzing and customizing metabolic and signaling KEGG pathways. It is a network-based approach designed to explore the topological relationship between genes (signaling- or enzymatic-genes) and metabolites, representing a powerful tool to investigate the genetic landscape and regulatory networks of metabolic phenotypes.
Author: Andrea Rodriguez-Martinez, Rafael Ayala, Joram M. Posma, Ana L. Neves, Maryam Anwar, Jeremy K. Nicholson, Marc-Emmanuel Dumas
Maintainer: Andrea Rodriguez-Martinez <andrea.rodriguez-martinez13 at imperial.ac.uk>, Rafael Ayala <rafaelayalahernandez at gmail.com>
citation("MetaboSignal")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MetaboSignal")
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("MetaboSignal")| MetaboSignal | HTML | R Script |
| MetaboSignal 2: merging KEGG with additional interaction resources | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneSignaling, GeneTarget, GraphAndNetwork, KEGG, Network, Pathways, Reactome, Software |
| Version | 1.36.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (8 years) |
| License | GPL-3 |
| Depends | R (>= 3.3) |
| Imports | KEGGgraph, hpar, igraph, RCurl, KEGGREST, EnsDb.Hsapiens.v75, stats, graphics, utils, org.Hs.eg.db, biomaRt, AnnotationDbi, MWASTools, mygene |
| System Requirements | |
| URL |
See More
| Suggests | RUnit, BiocGenerics, knitr, BiocStyle, rmarkdown |
| 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 | MetaboSignal_1.36.0.tar.gz |
| Windows Binary (x86_64) | MetaboSignal_1.36.0.zip |
| macOS Binary (x86_64) | MetaboSignal_1.36.0.tgz |
| macOS Binary (arm64) | MetaboSignal_1.36.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MetaboSignal |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MetaboSignal |
| Bioc Package Browser | https://code.bioconductor.org/browse/MetaboSignal/ |
| Package Short Url | https://bioconductor.org/packages/MetaboSignal/ |
| Package Downloads Report | Download Stats |