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Phase 3: condition-specific proteome-constrained ecModels - #5

Merged

edkerk merged 14 commits into

feat/py-phase3-condition-models

Sep 25, 2026

Merged

Phase 3: condition-specific proteome-constrained ecModels#5
edkerk merged 14 commits into
masterfrom
feat/py-phase3-condition-models

Commits on Sep 19, 2026
- feat: read, filter and convert the proteomics data
  edkerk
  committed
  a78d0bf
Commits on Sep 25, 2026
- Merge pull request #4 from SysBioChalmers/feat/py-phase2-data
  edkerk
  authored
  319dc07
- feat: use the ecYeastGEM 9.1.1 from ecModels gecko4
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  committed
  a6be707
- feat: condition biomass composition and maintenance
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  29f342b
- feat: apply the measured rates to a model
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  e83876f
- feat: level respiratory complex subunit abundances
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- feat: reconcile measured abundances with what the model needs
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  51d0eb1
- feat: fit maintenance to the measured gas rates
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  1aff290
- feat: build the condition-specific proteome-constrained ecModels
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  8c4a514
- docs: how to build the condition models
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- feat: let the solver be chosen, and test on the open one
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  7a312b6
- fix: keep the chemostat objective through a save and load
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  05615a0
- feat: relax abundances until the measured rates fit
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  5b39240
- feat: choose the glucose headroom and what the finished model minimises
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  committed
  7577392