domains / families / science / model-curation

model-curation

separate

Validates, gap-fills, and standardizes genome-scale metabolic models using memote for consistency and annotation scoring and COBRApy for manual curation, including mass/charge balance, energy-generating-cycle detection, dead-end resolution, GPR fixes, and SBML/SBO/MIRIAM annotation. Use when improving a draft model, gap-filling to a target medium, detecting erroneous ATP-from-nothing cycles, interpreting a memote score correctly (consistency vs biological validity), validating predictions against measured growth/essentiality, or preparing a model for publication.

When to use

• improving a draft model
• gap-filling to a target medium
• detecting erroneous ATP-from-nothing cycles
• interpreting a memote score correctly
• validating predictions against measured growth/essentiality
• preparing a model for publication
• fixing mass/charge imbalances
• resolving dead-end metabolites

When not to use

• measuring biological correctness
• predicting biology based solely on memote score

Skill page

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