BiGGR

DOI: 10.18129/B9.bioc.BiGGR    

Constraint based modeling in R using metabolic reconstruction databases

Bioconductor version: Release (3.6)

This package provides an interface to simulate metabolic reconstruction from the BiGG database(http://bigg.ucsd.edu/) and other metabolic reconstruction databases. The package facilitates flux balance analysis (FBA) and the sampling of feasible flux distributions. Metabolic networks and estimated fluxes can be visualized with hypergraphs.

Author: Anand K. Gavai, Hannes Hettling

Maintainer: Anand K. Gavai <anand.gavai at bioinformatics.nl>, Hannes Hettling <hannes.hettling at naturalis.nl>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("BiGGR")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("BiGGR")

 

PDF	R Script	BiGGR
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	GraphAndNetwork, Metabolomics, Network, Pathway, Software, Systems Biology, Visualization
Version	1.14.0
In Bioconductor since	BioC 2.13 (R-3.0) (4.5 years)
License	file LICENSE
Depends	R (>= 2.14.0), rsbml, hyperdraw, LIM, stringr
Imports	hypergraph, limSolve
LinkingTo
Suggests
SystemRequirements
Enhances
URL	http://www.bioconductor.org/
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	BiGGR_1.14.0.tar.gz
Windows Binary	BiGGR_1.14.0.zip
Mac OS X 10.11 (El Capitan)	BiGGR_1.14.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/BiGGR
Package Short Url	http://bioconductor.org/packages/BiGGR/
Package Downloads Report	Download Stats