Convert CobraToolbox model to cna

[Faezeh Zalpour]

Hi,

I have the metabolic network for Thraustochytrid strain used as an xml-file . Please advise on converting the CobraToolbox model format to a readable format for CellNetAnalyzer.

Thanks.

Faezeh

[axel]

Hi,

you can use CNAcobra2cna function for this. It takes a COBRA model struct as input and returns a CNA struct as output.

Best regards

Axel

[axel]

Hi,

my post before assumes that you already have a COBRA model struct by importing the XML file (which I assume is SBML format). If you have not done this you can also read the SBML file in CNA with the CNAsbmlModel2MFNetwork function which takes the filename as parameter and returns a CNA struct.

Best regards

Axel

faezez...@gmail.com schrieb am Freitag, 3. März 2023 um 18:00:35 UTC+1:

[Faezeh Zalpour]

Dear Axel

I did all these things and got an error. If possible, tell me the step by step.
Best regards 

Faezeh

[axel]

Dear  Faezeh,

can you copy & paste the console output of the commands you ran and the resulting error?

-Axel

[Faezeh Zalpour]

Dear Axel,

I have the SBML format but I don't know how to get the input and output data.

Best,

Faezeh