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Daniel Hermansson committed Sep 21, 2016
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# RAVEN
RAVEN software to simulate Genome Scale Metabolic models (GEMs) and includes alot of functionality for reconstruction of GEMs based on different kinds of omics data.
RAVEN (Reconstruction, Analysis and Visualization of Metabolic Networks) Toolbox is a software suite that allows for semi-automated reconstruction of genome-scale models. It makes use of published models and/or the KEGG database, coupled with extensive gap-filling and quality control features. The software suite also contains methods for visualizing simulation results and omics data, as well as a range of methods for performing simulations and analyzing the results. The software is a useful tool for system-wide data analysis in a metabolic context and for streamlined reconstruction of metabolic networks based on protein homology

If you are using RAVEN in any scientific work, please cite: [R. Agren, et. al, “The RAVEN Toolbox and Its Use for Generating a Genome-scale Metabolic Model for Penicillium chrysogenum,” PLoS Comput. Biol., vol. 9, no. 3, p. e1002980, Mar. 2013.](http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1002980).

## Installation
RAVEN can be installed via cloning the Github repository as per below or by downloading and extracting one of the a zipped [releases](https://github.com/SysBioChalmers/RAVEN/releases).
RAVEN can be installed via cloning the Github repository as per below or by downloading and extracting one of the a zipped [release](https://github.com/SysBioChalmers/RAVEN/releases). Please note that the releases do not always represent the most up to date version.

```bash
git clone git@github.com:SysBioChalmers/RAVEN.git
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