How to obtain the metabolite concentration of a community #135
-
|
Hi! |
Beta Was this translation helpful? Give feedback.
Replies: 1 comment 3 replies
-
|
I should add up the results of the metabolite flow using micom.measures.production_rates and micom.measures.consumption_rates? |
Beta Was this translation helpful? Give feedback.
-
|
So you won't get concentrations because metabolic models only predict fluxes. The questions is whether you want the net flux or the secretion flux. For instance, for butyrate we usually use the secretion flux because the host/gut has access to that pool. In that case it would just be the production_rates function you already found and filtering for butyrate in that list. |
Beta Was this translation helpful? Give feedback.
-
|
thank you very much! |
Beta Was this translation helpful? Give feedback.
-
|
but, in which unity is predicted fluxes? |
Beta Was this translation helpful? Give feedback.
So you won't get concentrations because metabolic models only predict fluxes. The questions is whether you want the net flux or the secretion flux. For instance, for butyrate we usually use the secretion flux because the host/gut has access to that pool. In that case it would just be the production_rates function you already found and filtering for butyrate in that list.