To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("mmnet")
In most cases, you don't need to download the package archive at all.
mmnet
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This package is for version 3.5 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see mmnet.
A metagenomic pipeline for systems biology
Bioconductor version: Release (3.5)
This package gives the implementations microbiome metabolic network constructing and analyzing. It introduces a unique metagenomic systems biology approach, mapping metagenomic data to the KEGG global metabolic pathway and constructing a systems-level network. The system-level network and the next topological analysis will be of great help to analysis the various functional properties, including regulation and metabolic functionality of the metagenome.
Author: Yang Cao, Fei Li
Maintainer: Yang Cao <yiluheihei at gmail.com>, Fei Li <pittacus at gmail.com>
Citation (from within R,
enter citation("mmnet")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("mmnet")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("mmnet")
| R Script | mmnet | |
| Reference Manual |
Details
| biocViews | GraphsAndNetwork, Microbiome, Pathways, Sequencing, Software, SystemsBiology |
| Version | 1.13.0 |
| In Bioconductor since | BioC 2.14 (R-3.1) (3.5 years) |
| License | GPL (>= 2) |
| Depends | R (>= 2.14), igraph, biom |
| Imports | Biobase, RJSONIO, stringr, reshape2, ggplot2, KEGGREST, plyr, XML, RCurl, flexmix, Matrix, methods, tools |
| LinkingTo | |
| Suggests | RCytoscape, graph, knitr |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | mmnet_1.13.0.tar.gz |
| Windows Binary | |
| Mac OS X 10.11 (El Capitan) | |
| Source Repository | git clone https://git.bioconductor.org/packages/mmnet |
| Package Short Url | http://bioconductor.org/packages/mmnet/ |
| Package Downloads Report | Download Stats |
Documentation »
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