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Sampling on the flux space of multiple metabolic networks #67

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vissarion opened this issue Jun 23, 2023 · 2 comments
Open

Sampling on the flux space of multiple metabolic networks #67

vissarion opened this issue Jun 23, 2023 · 2 comments
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enhancement New feature or request

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@vissarion
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Proposed roadmap (from @hariszaf in #18):

  • implement approach from cobra toolbox to build merged model
  • sample by asking biomass of species A to be 0 and biomass of species B to be max
  • sample with the vice versa conditions
  • sample asking for both biomass functions to be max
@hariszaf
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hariszaf commented Jun 30, 2023

Alternative way to model the community that might be better for our implementation: https://github.com/mathomics/ecosystem/blob/main/multiple_ecosystem.py
This comes from a very recent study of Natalia E. Jiménez.
They actually implement the RedCom approach of Koch et al. (2019); up to now no implementation was publicly available.

Another recent approach here

@vikasgrewal16
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is this issue still available ?

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