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cdanielmachado / yeast_36_strains

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building fungi models #1

Closed Rotembartuv closed 1 year ago

Rotembartuv commented 1 year ago

Hi Daniel,

I found your git at one of the issues in CarvMe git. I'm currently working with prokaryotic models built using CarvMe, and Im trying to build GEM of Penicillium. I tried RAVEN, but they are using a different database than BIGG, and I prefer the CarvMe models. I have some questions:

  1. do you believe that one of the yeast strains here can be used as a reference model in CarvMe?
  2. do you think that the notebook here can be modified and fit for fungi models?

Tnx

cdanielmachado commented 1 year ago

Hi,

Unfortunately we still don't have a good eukaryotic template model for CarveMe. The yeast models in this repository are quite old and I would not recommend using them either.

I think that for your specific case, either using RAVEN or just doing a manual reconstruction is the best option.

Best regards, Daniel