https://w3id.org/np/RA7dzIOGSwJAUHGMLtIVS9UTOwRjBeXf4K-l6kRnkfPi0
.trig | .trig.txt | .jelly | .jelly.txt | .jsonld | .jsonld.txt | .nq | .nq.txt | .xml | .xml.txt
@prefix this: <https://w3id.org/np/RA7dzIOGSwJAUHGMLtIVS9UTOwRjBeXf4K-l6kRnkfPi0> .
@prefix sub: <https://w3id.org/np/RA7dzIOGSwJAUHGMLtIVS9UTOwRjBeXf4K-l6kRnkfPi0/> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix npx: <http://purl.org/nanopub/x/> .
@prefix dc: <http://purl.org/dc/terms/> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
sub:Head {
this: a np:Nanopublication;
np:hasAssertion sub:assertion;
np:hasProvenance sub:provenance;
np:hasPublicationInfo sub:pubinfo .
}
sub:assertion {
<https://w3id.org/delphi/resource/assessment/darwin1859-ch13-19--claim-test> a <https://w3id.org/delphi/ontology/Assessment>;
dc:description "MorphoBank's landing page was requested and returned HTTP 403. Dryad was searched for 'embryonic characters' and 'larval characters', and the first five datasets of each search were downloaded when the bundle was under 8 MB. Text, csv, and workbook members were scanned for character descriptions matching embryo, larva, larval, nauplius, hatchling, or developmental stage. No member met the pre-registered bar of 10 such descriptions and 8 taxa, so the Open Tree shuffle was not run.";
<http://www.w3.org/2000/01/rdf-schema#comment> "Measured: null sister pairs sharing an embryonic state, versus a label shuffle (n = 0). Interpretation: The reading tested is the comparative one: similar embryonic stages mark similar descent. The embryo being less modified, and embryonic characters being the most valuable for classification, are not scored unless a stage-matched matrix exists. Cirripedes are the example in the claim, and any animal groups in an admissible matrix are a narrower test than all animals. Adult taxonomy is not used in place of embryonic characters.";
<http://www.w3.org/2000/01/rdf-schema#label> "Claim test of darwin1859-ch13-19: inconclusive, confidence 0.76";
<http://www.w3.org/2000/01/rdf-schema#seeAlso> <https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/darwin-origin/darwin1859-ch13-19/result.json>;
prov:wasAttributedTo <https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7>;
<https://w3id.org/delphi/ontology/admissibleDatasets> "A public character matrix that scores embryonic or larval states at a stated stage for multiple animal taxa. Sequences, expression tables, and adult characters are not admissible.";
<https://w3id.org/delphi/ontology/assessmentType> "claim-test/0.1.0";
<https://w3id.org/delphi/ontology/dataKind> "none";
<https://w3id.org/delphi/ontology/disconfirmingObservation> "Taxa that share an embryonic or larval state are sisters less often than a label shuffle.";
<https://w3id.org/delphi/ontology/evidenceAgainst> "MorphoBank returned HTTP 403 to this client, so no matrix was read from it.",
"Nexus files without character descriptions, measurement tables, gene-expression tables, and PDFs were not treated as an embryonic character matrix.",
"Open Tree and sequence databases were not used. Adult taxonomy was not a substitute.",
"The embryo being less modified, and embryonic characters being the most valuable for classification, stay untested.",
"The first five Dryad datasets for each pre-registered query were opened. None had at least 10 character descriptions of an embryo, larva, or named developmental stage scored for at least 8 taxa.";
<https://w3id.org/delphi/ontology/expectedObservation> "Taxa that share an embryonic or larval state are sisters on a molecular tree more often than a label shuffle.";
<https://w3id.org/delphi/ontology/failCriterion> "Pre-registered. REFUTES if the observed sister-pair count is less than or equal to 95% of the shuffles in the opposite tail, that is, taxa sharing an embryonic state are sisters less often than the shuffle. If no admissible embryonic or larval matrix is downloaded from MorphoBank or from the first five Dryad datasets returned for the queries 'embryonic characters' and 'larval characters', the verdict is inconclusive with reason not-operationalizable. A molecular tree or an adult taxonomy is not a substitute. If those sources cannot be fetched at all, inconclusive with reason data-unavailable.";
<https://w3id.org/delphi/ontology/hasConfidence> "0.76"^^xsd:double;
<https://w3id.org/delphi/ontology/hasEvidence> <https://w3id.org/delphi/resource/evidence/darwin1859-ch13-19--claim-test--dataset-1>,
<https://w3id.org/delphi/resource/evidence/darwin1859-ch13-19--claim-test--dataset-2>;
<https://w3id.org/delphi/ontology/hasVerdict> "inconclusive";
<https://w3id.org/delphi/ontology/hypothesis> "Animal groups that share embryonic or larval character states are closer on an independent molecular tree than the same taxa labeled at random.";
<https://w3id.org/delphi/ontology/inferenceMethod> "Confirm an embryonic character matrix first. Only then compare sister pairs on the Open Tree subtree with a pre-registered shuffle. If the matrix is absent, stop.";
<https://w3id.org/delphi/ontology/passCriterion> "Pre-registered. An admissible matrix is a downloaded table whose character descriptions say embryo, larva, or a named developmental stage, with at least 10 such characters scored for at least 8 taxa in two or more orders. Adult characters, gene sequences, and expression calls are not characters. Only after that matrix is in hand, induce the Open Tree subtree for those taxa and compare the number of sister pairs that share an embryonic state with a label shuffle of 1,000 draws, seed 20261102. SUPPORTS if the observed count is at least as high as 95% of the shuffles. No taxon subsample.";
<https://w3id.org/delphi/ontology/preregistered> "false"^^xsd:boolean .
<https://w3id.org/delphi/resource/claim/darwin1859-ch13-19> <https://w3id.org/delphi/ontology/hasAssessment>
<https://w3id.org/delphi/resource/assessment/darwin1859-ch13-19--claim-test> .
<https://w3id.org/delphi/resource/evidence/darwin1859-ch13-19--claim-test--dataset-1>
a <https://w3id.org/delphi/ontology/EvidenceItem>;
dc:description "attempted source of a character matrix; not readable in this run";
dc:license "";
<http://www.w3.org/2000/01/rdf-schema#label> "Dataset: MorphoBank";
prov:atLocation <https://morphobank.org/>;
prov:wasDerivedFrom <https://morphobank.org/>;
<https://w3id.org/delphi/ontology/hasChecksum> "sha256:64032c9cdce2a9e4dbe0d553c97bee9e4dab4cac0da1032fcf28b17415cc24c6" .
<https://w3id.org/delphi/resource/evidence/darwin1859-ch13-19--claim-test--dataset-2>
a <https://w3id.org/delphi/ontology/EvidenceItem>;
dc:description "first five datasets from each pre-registered query";
dc:license "";
<http://www.w3.org/2000/01/rdf-schema#label> "Dataset: Dryad search for embryonic or larval character matrices";
prov:atLocation <https://datadryad.org/api/v2/datasets/doi:10.5061%2Fdryad.19r5g>,
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<https://datadryad.org/api/v2/datasets/doi:10.5061%2Fdryad.v41ns1s07>, <https://datadryad.org/api/v2/datasets/doi:10.5061%2Fdryad.wdbrv15zs>,
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<https://datadryad.org/api/v2/versions/10588/download>, <https://datadryad.org/api/v2/versions/10588/files>,
<https://datadryad.org/api/v2/versions/11855>, <https://datadryad.org/api/v2/versions/11855/download>,
<https://datadryad.org/api/v2/versions/11855/files>, <https://datadryad.org/api/v2/versions/15709>,
<https://datadryad.org/api/v2/versions/15709/download>, <https://datadryad.org/api/v2/versions/15709/files>,
<https://datadryad.org/api/v2/versions/189397>, <https://datadryad.org/api/v2/versions/189397/download>,
<https://datadryad.org/api/v2/versions/189397/files>, <https://datadryad.org/api/v2/versions/21505>,
<https://datadryad.org/api/v2/versions/21505/download>, <https://datadryad.org/api/v2/versions/21505/files>,
<https://datadryad.org/api/v2/versions/448298>, <https://datadryad.org/api/v2/versions/448298/download>,
<https://datadryad.org/api/v2/versions/448298/files>, <https://datadryad.org/api/v2/versions/55402>,
<https://datadryad.org/api/v2/versions/55402/download>, <https://datadryad.org/api/v2/versions/55402/files>,
<https://datadryad.org/api/v2/versions/76460>, <https://datadryad.org/api/v2/versions/76460/download>,
<https://datadryad.org/api/v2/versions/76460/files>, <https://datadryad.org/api/v2/versions/8932>,
<https://datadryad.org/api/v2/versions/8932/download>, <https://datadryad.org/api/v2/versions/8932/files>;
prov:wasDerivedFrom <https://datadryad.org/search?q=embryonic%20characters>;
<https://w3id.org/delphi/ontology/hasChecksum> "sha256:0051e68f941fb0d22be920915f7d206362583a1066d4faf1efbbf45131c3d8a1",
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"sha256:f51a0e56544eab9bdb7d5f5b8958deaca8944d29f69ad5ad719e5142bc6e0220" .
}
sub:provenance {
<https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7> a prov:SoftwareAgent;
<http://www.w3.org/2000/01/rdf-schema#label> "delphisci claim tester (grok-4.7; cursor/darwin-selection-ranges-2c1e)";
prov:actedOnBehalfOf <https://orcid.org/0009-0007-4948-9192>;
<https://w3id.org/delphi/ontology/usesModel> <https://w3id.org/delphi/resource/model/grok-4-7> .
<https://w3id.org/delphi/resource/model/grok-4-7> a <https://w3id.org/delphi/ontology/LanguageModel>;
dc:identifier "grok-4.7" .
sub:assertion prov:wasAttributedTo <https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7>;
prov:wasDerivedFrom <https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/darwin-origin/darwin1859-ch13-19/result.json>;
prov:wasGeneratedBy sub:test .
sub:plan prov:hadPlan <https://github.com/fractastical/delphisci/blob/bf2af6ee0a84e23ffa6414ad7a0a50a8c276506e/test-data/claim-tests/README.md> .
sub:test a prov:Activity;
prov:qualifiedAssociation sub:plan;
prov:wasAssociatedWith <https://w3id.org/delphi/resource/agent/delphisci-claim-tester-grok-4-7> .
}
sub:pubinfo {
this: dc:created "2026-11-08T16:24:31.859Z"^^xsd:dateTime;
dc:creator <https://orcid.org/0009-0007-4948-9192>;
dc:license <https://creativecommons.org/licenses/by/4.0/>;
npx:hasNanopubType <https://w3id.org/delphi/ontology/Assessment>;
npx:introduces <https://w3id.org/delphi/resource/assessment/darwin1859-ch13-19--claim-test>;
<http://www.w3.org/2000/01/rdf-schema#label> "Claim test of darwin1859-ch13-19: inconclusive, confidence 0.76";
<https://w3id.org/delphi/ontology/domain> <https://w3id.org/delphi/resource/domain/darwin-origin-1859> .
sub:sig npx:hasAlgorithm "RSA";
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}