Conversion of xls file to sbml or xml format

[Sagnik Mitra]

I have a certain file for iCac967 model which is in xls format. Need to generate MEMOTE report for it. Is there any relatively easy way than manually curating or working on making the xml format? I am new to this field

[Matthias König]

It depends on how your xlsx file looks. If it is close to SBTab format you could do some basic conversions to your XLSX and try to create the SBML with SBTab.

If you know a bit of python I would recommend to write a simple script to create the SBML from the excel file.

You can use pandas to read the information and sbmlutils (https://github.com/matthiaskoenig/sbmlutils) to create the SBML.

See https://sbmlutils.readthedocs.io/en/latest/notebooks/sbml_creator.html for an example.

I am updating the fbc information this week, so there should be better documentation on how to easily create an SBML model with fbc information.

If you have any questions let me know.

Best Matthias