Query regarding nature of gapfilled carveme models for smetana use

cdanielmachado / smetana

SMETANA: a tool to analyse interactions in microbial communities

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Query regarding nature of gapfilled carveme models for smetana use #25

Closed shreyanshumale closed 3 years ago

shreyanshumale commented 3 years ago

I wanted to know if I should use the 'initialized' models (--gapfill -i ) or the unconstrained ones (just --gapfill ) produced by carveme for my smetana analyses? (As it seems to make a difference)

Please let me know!

Thanks, Shreyansh

cdanielmachado commented 3 years ago

Hi Shreyansh,

That is strange, SMETANA should ignore the initialized medium and calculate a new one. In any case, I think it is best if you use the unconstrained models.

Best regards, Daniel