To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("BiGGR")
In most cases, you don't need to download the package archive at all.
BiGGR
Constraint based modeling in R using metabolic reconstruction databases.
Bioconductor version: 2.14
This package provides an interface to simulate metabolic reconstruction from the BiGG database(http://bigg.ucsd.edu/) and other metabolic reconstruction databases. The package aids in performing flux balance analysis (FBA). Metabolic networks and estimated fluxes can be visualized using hypergraphs.
Author: Anand K. Gavai, Hannes Hettling
Maintainer: Anand K. Gavai <anand.gavai at bioinformatics.nl>, Hannes Hettling <hannes.hettling at naturalis.nl>
Citation (from within R,
enter citation("BiGGR")):
Installation
To install this package, start R and enter:
source("http://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")
| R Script | BiGGR | |
| Reference Manual | ||
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | Metabolomics, Network, Software, Visualization |
| Version | 1.2.0 |
| In Bioconductor since | BioC 2.13 (R-3.0) |
| License | file LICENSE |
| Depends | R (>= 2.14.0), rsbml, hyperdraw, LIM |
| Imports | hypergraph |
| Suggests | |
| System Requirements | |
| URL | http://www.bioconductor.org/ |
| Depends On Me | |
| Imports Me | |
| Suggests Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | BiGGR_1.2.0.tar.gz |
| Windows Binary | BiGGR_1.2.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | BiGGR_1.2.0.tgz |
| Mac OS X 10.9 (Mavericks) | BiGGR_1.2.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
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