BiGGR
Constraint based modeling in R using metabolic reconstruction databases
Bioconductor version: Release (3.20)
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>
citation("BiGGR")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("BiGGR")
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("BiGGR")| BiGGR | R Script | |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | GraphAndNetwork, Metabolomics, Network, Pathway, Software, Systems Biology, Visualization |
| Version | 1.42.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) (11 years) |
| License | file LICENSE |
| Depends | R (>= 2.14.0), rsbml, hyperdraw, LIM, stringr |
| Imports | hypergraph, limSolve |
| System Requirements | |
| URL | http://www.bioconductor.org/ |
See More
| Suggests | |
| 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 | BiGGR_1.42.0.tar.gz |
| Windows Binary (x86_64) | BiGGR_1.42.0.zip |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/BiGGR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BiGGR |
| Bioc Package Browser | https://code.bioconductor.org/browse/BiGGR/ |
| Package Short Url | https://bioconductor.org/packages/BiGGR/ |
| Package Downloads Report | Download Stats |