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It compares best genotypic fitness at generation 250 with hardwired by one-sided Welch t-tests, measures the change in the mean genotypic curve between generations 126-150 and 226-250, the across-repeat SD of best genotypic fitness over generations 51-250 per level, and best phenotypic fitness at generation 250." } ], "@type": [ "https://w3id.org/delphi/ontology/Assessment" ], "http://www.w3.org/2000/01/rdf-schema#comment": [ { "@value": "Measured: 0.583921 mean best genotypic fitness at generation 250, competency 400 (hardwired: see extra) (n = 100, Monte Carlo; fixed seed, deterministic for a given numpy version). Interpretation: Simulation-result claim, tested by replication. 'Genotypic fitness of the best individual' is taken, as in the authors' Exp1 code, as the maximum pre-development fitness in the population each generation. 'Plateaued' is operationalised as < 0.03 change in the repeat-mean curve between generations 126-150 and 226-250; 'wider variance' as the across-repeat SD of best genotypic fitness averaged over generations 51-250; 'high phenotypic fitness' as mean best phenotypic fitness >= 0.95 at generation 250. 'Reduced selective pressure on structural genes' is the authors' interpretation of the lower plateau and is not measured separately." } ], "http://www.w3.org/2000/01/rdf-schema#label": [ { "@value": "Claim test of levin-2023-competency-05: supports, confidence 0.9" } ], "http://www.w3.org/2000/01/rdf-schema#seeAlso": [ { "@id": "https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/levin-papers/levin-2023-competency-05/result.json" } ], "http://www.w3.org/ns/prov#wasAttributedTo": [ { "@id": "https://w3id.org/delphi/resource/agent/delphisci-claim-tester-claude-opus-5-5" } ], "https://w3id.org/delphi/ontology/admissibleDatasets": [ { "@value": "Runs of the model exactly as specified in the paper and its supplement (50-cell arrays, 100 embryos, top-10% phenotypic selection, crossover, mutation probability 0.6, competency 20/100/400); unspecified details from the authors' public code; fresh random seeds independent of the companion test levin-2023-competency-04." } ], "https://w3id.org/delphi/ontology/assessmentType": [ { "@value": "claim-test/0.1.0" } ], "https://w3id.org/delphi/ontology/dataKind": [ { "@value": "computational" } ], "https://w3id.org/delphi/ontology/disconfirmingObservation": [ { "@value": "Competent genotypic fitness reaching or exceeding hardwired, continuing to climb, or showing less spread at higher competency." } ], "https://w3id.org/delphi/ontology/evidenceAgainst": [ { "@value": "All pre-registered criteria hold: genotypic fitness at generation 250 is 0.973, 0.872 and 0.584 at competency 20, 100 and 400 vs 1.000 hardwired (all p < 1e-80); the curves change by < 0.003 between the two windows; across-repeat SD rises 0.0040 < 0.0094 < 0.0211; phenotypic fitness is 1.0 at every level." }, { "@value": "How long genotypic fitness tracks hardwired before plateauing depends strongly on competency: the competent mean first falls 0.02 below hardwired at generation 85, 33 and 6 for competency 20, 100 and 400. 'Rose briefly' fits competency 400 best; at competency 20 the genotypic curve follows hardwired for most of the climb." }, { "@value": "The companion test levin-2023-competency-04 had already reported generation-250 genotypic means (0.97, 0.87, 0.59) before this test was pre-registered, so the direction of criterion A was known; this run uses independent seeds." }, { "@value": "The repository was restructured while this test ran (claim-tests/ moved to test-data/claim-tests/, books/ to claim-sources/); the pre-registered planned_datasets keep the old paths." }, { "@value": "This is a replication of a simulation, not an empirical test: it shows what follows from the stated model, not what real cellular competency does." } ], "https://w3id.org/delphi/ontology/expectedObservation": [ { "@value": "Competent populations' best genotypic fitness rises for a few generations, then flattens below the hardwired curve, with across-repeat spread increasing with competency level and phenotypic fitness near maximal." } ], "https://w3id.org/delphi/ontology/failCriterion": [ { "@value": "Pre-registered: refutes if any competent level's mean best genotypic fitness at generation 250 is >= hardwired, or the generation-51-250 SD at competency 400 is below that at competency 20, or any competent level's genotypic mean curve still rises by more than 0.1 between the 126-150 and 226-250 windows. 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