MetaboSignal
This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see MetaboSignal.
MetaboSignal: a network-based approach to overlay and explore metabolic and signaling KEGG pathways
Bioconductor version: 3.11
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 <r.ayala14 at imperial.ac.uk>
citation("MetaboSignal")
):
Installation
To install this package, start R (version "4.0") 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 | 1.18.0 |
In Bioconductor since | BioC 3.4 (R-3.3) (7.5 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_1.18.0.tar.gz |
Windows Binary | MetaboSignal_1.18.0.zip |
macOS 10.13 (High Sierra) | MetaboSignal_1.18.0.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 |
Old Source Packages for BioC 3.11 | Source Archive |