MetaPathNet
KEGG-Based Metabolic and Signaling Network Analysis for Systems Biology
Bioconductor version: 3.24 · Package version: 0.99.5
Provides tools to construct KEGG-based metabolic and signaling networks as edge lists for single-organism or cross-species analyses. The package supports identifier mapping, shortest-path and topology analyses, community detection, permutation testing, pathway over-representation analysis, and node annotation for host-microbiome studies. It also provides network visualisation in R and Cytoscape and supports extension of KEGG-based networks through additional reaction resources and user-defined reactions.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MetaPathNet")Details
| Maintainer | Zhaojie Wang <zhaojie.wang@cnrs.fr> |
| Author | Zhaojie Wang [aut, cre] (ORCID: <https://orcid.org/0009-0009-7191-2107>), Francesc Puig-Castellvi [aut], Manyi Jia [aut], Marc-Emmanuel Dumas [aut, ths], Centre National de la Recherche Scientifique [fnd], Imperial College London [fnd], French National Research Agency [fnd] |
| License | MIT + file LICENSE |
| URL | https://github.com/zhaojie-wang/MetaPathNet |
| Bug Reports | https://github.com/zhaojie-wang/MetaPathNet/issues |
| System Requirements | Cytoscape (>= 3.9.0) for Cytoscape-based visualisation functions |
| Downloads rank | 33 |
| Source branch | devel |
| biocViews | Classification, KEGG, Microbiome, Network, Pathways, Software, SystemsBiology |
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | MetaPathNet_0.99.5.tar.gz |
| Windows binary (x86_64) | MetaPathNet_0.99.5.zip |
| macOS binary (arm64) | MetaPathNet_0.99.5.tgz |
| macOS binary (x86_64) | MetaPathNet_0.99.5.tgz |