@prefix this: <https://w3id.org/sciencelive/np/RADLcvxDglyzEnEfAo9e6RfnXQ_YK3v_gJcnWLVBkIbP4> .
@prefix sub: <https://w3id.org/sciencelive/np/RADLcvxDglyzEnEfAo9e6RfnXQ_YK3v_gJcnWLVBkIbP4/> .
@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 {
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    np:hasProvenance sub:provenance;
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sub:assertion {
  sub:soroye-replication-study a <https://w3id.org/sciencelive/o/terms/FORRT-Replication-Study>,
      <https://w3id.org/sciencelive/o/terms/Replication-Study>;
    <http://www.w3.org/2000/01/rdf-schema#label> "Python re-implementation of Soroye et al. 2020 pipeline applied to the original Bombus dataset ";
    <http://www.w3.org/2004/02/skos/core#related> <http://www.wikidata.org/entity/Q1141466>,
      <http://www.wikidata.org/entity/Q125928>, <http://www.wikidata.org/entity/Q250388>,
      <http://www.wikidata.org/entity/Q2922293>;
    <https://w3id.org/sciencelive/o/terms/hasDeviationDescription> """  Two intentional deviations from the original lme4/MCMC implementation:
  (i) the species random effect is fit by variational Bayes (statsmodels.BinomialBayesMixedGLM) rather than full MCMC, a fast approximation that typically underestimates posterior credible-interval width by approximately 10–20%;                                                                                                
  (ii) the climateLimits[[1]]/[[2]] precomputation step is reconstructed from the available R helper scripts because the precomputation script itself is not in the public Figshare release. """;
    <https://w3id.org/sciencelive/o/terms/hasDiscipline> <http://www.wikidata.org/entity/Q7150>;
    <https://w3id.org/sciencelive/o/terms/hasMethodologyDescription> "All five preprocessing and modelling steps in the original R pipeline (Cleandata_and_makeMCPs.R, CalcSpeciesPr_Rich.R, CalcSamplingEffort_Cont.R, the climate-position computation, and binomialGLMM4Presence.R) were re-implemented in Python 3.12 using xarray, pandas, statsmodels, and scipy. The mixed-effects logistic GLMM was fit with the species random effect and the same fixed-effect interactions as the original (thermal-position baseline + delta + their interaction, precipitation analogues, baseline × baseline interaction, delta × delta interaction). The datasets are the authors' bundled Bombus + CRU TS 3.24.01 monthly climate data (Figshare 10.6084/m9.figshare.9956471) on a 100 km cylindrical equal-area grid for the 1901–1974 baseline and 2000–2014 recent periods.";
    <https://w3id.org/sciencelive/o/terms/hasScopeDescription> """The complete claim — that local extirpation rate in bumble bee species rises with the frequency at which local temperatures exceed species-specific historically observed thermal tolerances — is tested on the authors' original dataset across all 66 bumble bee species and the entire North America + Europe study area. Both the regression specification (mixed-effects logistic with thermal-position baseline + delta + their interaction, precipitation analogues, and species random effect) and the response variable (binary local extirpation between the 1901–1974 baseline and 2000–2014 recent
  period) match the original.  """;
    <https://w3id.org/sciencelive/o/terms/targetsClaim> <https://w3id.org/sciencelive/np/RArj4912Wm6DO0Y-sR8KeaJsZUKrVcJHWArmINg-kaOhs/weather-biodiversity> .
}

sub:provenance {
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sub:pubinfo {
  <https://orcid.org/0000-0002-1784-2920> <http://xmlns.com/foaf/0.1/name> "Anne Fouilloux" .
  
  this: dc:created "2026-04-25T10:32:21.205Z"^^xsd:dateTime;
    dc:creator <https://orcid.org/0000-0002-1784-2920>;
    dc:license <https://creativecommons.org/licenses/by/4.0/>;
    npx:introduces sub:soroye-replication-study;
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    <http://www.w3.org/2000/01/rdf-schema#label> "NP created using Declaring a replication study design according to FORRT";
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