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stat-result-validator
// Validate statistical research outputs for formulation quality, method-to- problem alignment, theory presence, experimental evidence, fair comparison, artifact completeness, and final-claim consistency.
// Validate statistical research outputs for formulation quality, method-to- problem alignment, theory presence, experimental evidence, fair comparison, artifact completeness, and final-claim consistency.
Run Flux Balance Analysis (FBA) and related constraint-based simulations using COBRApy. Covers standard FBA, parsimonious FBA (pFBA), Flux Variability Analysis (FVA), loopless FBA, gene/reaction knockouts, and carbon source swapping. Outputs flux distributions and CSV files.
Analyse FBA flux distributions to extract biological insights. Covers gene essentiality, phenotypic phase planes, flux sampling, pathway-level aggregation, secretion product prediction, and production of publication- quality figures.
Build or load a genome-scale metabolic model (GSMM) using COBRApy. Covers loading from BIGG, constructing minimal models from scratch, setting medium constraints, and exporting validated .json model files.
Validate a COBRApy genome-scale metabolic model for mass/charge balance, stoichiometric consistency, biomass producibility, dead-end metabolites, thermodynamic loops, and GPR rule formatting. Outputs a structured validation report with errors and warnings.
Plan publishable constraint-based metabolic modelling studies when the user has a broad biological or metabolic-engineering topic but no concrete dataset, organism, model, or hypothesis. Selects feasible BiGG/COBRA models, objectives, perturbations, analyses, metrics, figures, and risk controls before FBA code is generated.
Orchestrate the full metabolic flux analysis pipeline from model loading to phenotype prediction and publication figures. Triggers when the user provides an organism name, BIGG model ID, or custom reaction list and wants end-to-end metabolic modelling run automatically.
| name | stat-result-validator |
| description | Validate statistical research outputs for formulation quality, method-to- problem alignment, theory presence, experimental evidence, fair comparison, artifact completeness, and final-claim consistency. |
| metadata | {"category":"domain","trigger-keywords":"validation,audit,formulation,theory,comparison,claims,statistical sanity,quality gate","applicable-stages":"10,11,12,13,14,15,16,17,20","priority":"1"} |
Use this skill after formulation, method proposal, theory, experimental evaluation, comparison, and result synthesis. It checks whether the final result is supported by a coherent statistical research chain.
Required for all topics:
progress/<TOPIC_ID>/step0_problem_formulation.md
progress/<TOPIC_ID>/step1_method_proposal.md
progress/<TOPIC_ID>/step2_theory_analysis.md
progress/<TOPIC_ID>/step3_experimental_evaluation.md
progress/<TOPIC_ID>/step4_comparison.md
progress/<TOPIC_ID>/step5_result_synthesis.md
progress/<TOPIC_ID>/step6_quality_audit.md
experiments/<TOPIC_ID>/config.yaml
experiments/<TOPIC_ID>/results/metrics.json
experiments/<TOPIC_ID>/results/run_manifest.json
experiments/<TOPIC_ID>/results/comparison_summary.md
experiments/<TOPIC_ID>/results/claim_verdicts.json
experiments/<TOPIC_ID>/report/paper.md
experiments/<TOPIC_ID>/README.md
Analysis-specific source files and raw outputs are determined by the experiment
plan and should live under experiments/<TOPIC_ID>/src/ and
experiments/<TOPIC_ID>/results/.
The formulation must define:
Blocking failures:
Verify that:
Theory may be rigorous or partial, but it must be explicit.
Check for:
Blocking failures:
Check that:
run_manifest.json.Verify that:
Every final claim must be traceable to:
formulation -> method -> theory -> experiment -> comparison
Use:
PASS: formulation, theory, experiments, and comparisons support the claims.WARN: usable but has limitations that must be disclosed.FAIL: missing formulation, theory, evidence, or fair comparison prevents a
valid conclusion.