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cdanielmachado / carveme

CarveMe: genome-scale metabolic model reconstruction
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File conversion #83

Closed Sububioinfo closed 4 years ago

Sububioinfo commented 4 years ago

Hi, i have successfully installed and constructed metabolic model using Carveme. Got the output file as .xml file. is it possible to convert the same file to tsv or excel with your script? otherwise, you can suggest me some tools for that. I need to predict the Flux balance analysis for the metabolic model from carveme. which tool will support for FBA analysis. please suggest that too.

cdanielmachado commented 4 years ago

Hi, we only support SBML as the output format. It is the only accepted community standard for metabolic models.

For running FBA you have many tools available in different programming languages, you can find many of them here: http://sbml.org/SBML_Software_Guide/SBML_Software_Matrix

If you want to use Python, I would recommend reframed or cobrapy.