@prefix this: <https://w3id.org/sciencelive/np/RAsGeFqqv4iQqrFNyjQwpSqKQYYk8JqGEjpCCJf1FtAM4> .
@prefix sub: <https://w3id.org/sciencelive/np/RAsGeFqqv4iQqrFNyjQwpSqKQYYk8JqGEjpCCJf1FtAM4/> .
@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 {
  sub:soroye2020-iberian-bombus-healpix-nside128-substrate-extension 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> "TEI mechanism — HEALPix nside=128 substrate extension on Iberian Bombus (full GLMM refit at native DestinE Climate DT pixelisation)";
    <http://www.w3.org/2004/02/skos/core#related> <http://www.wikidata.org/entity/Q125928>,
      <http://www.wikidata.org/entity/Q2922293>, <http://www.wikidata.org/entity/Q5629401>;
    <https://w3id.org/sciencelive/o/terms/hasDeviationDescription> """1. Pixelisation. Soroye 2020 fit at the CEA grid (~100 km, equal-area cylindrical). This Study fits at HEALPix-NESTED nside=128 on the WGS84 ellipsoid (~46 km). Cell area is ~4× smaller than Soroye's; cell shape and topology differ. This is the SAME deviation kind as the canonical nside=64 sibling, just at a finer resolution.

2. Region. Iberian peninsula only — same as the canonical sibling.

3. Inference engine. Two independent Python implementations (statsmodels VB, bambi/PyMC NUTS) — same as the canonical sibling.

4. Prior choices. Bambi defaults (Half-StudentT on group SDs) rather than Soroye's MCMCglmm informative inverse-Wishart — same deviation as the canonical sibling.

5. Climate inputs. Soroye's bundled CRU TS 3.24.01 from his Figshare deposit, used unchanged — NOT a deviation.

6. Tier 2 projection grid alignment. Unlike the canonical nside=64 sibling, this Study fits AND projects at the same native HEALPix nside=128 substrate — no parent-cell aggregation between fit and projection grids. This eliminates one source of cross-substrate aggregation noise but introduces a finer-grained per-cell extrapolation tail (more cells lie far outside the training distribution per species).""";
    <https://w3id.org/sciencelive/o/terms/hasDiscipline> <http://www.wikidata.org/entity/Q1886501>;
    <https://w3id.org/sciencelive/o/terms/hasMethodologyDescription> """METHOD

The methodology mirrors the canonical nside=64 sibling exactly except for the spatial substrate. Cell coverage and per-species niche limits are computed on HEALPix-NESTED nside=128 cells of the WGS84 ellipsoid (using the healpix-geo Python library); per-species niche limits and the GLMM are refit at this substrate.

GLMM specification (identical to Soroye 2020 and to the canonical sibling):
    extinction ~ continent + sc_sampling + sc_TEI_bs + sc_TEI_delta + sc_TEI_bs:sc_TEI_delta + sc_PEI_bs + sc_PEI_delta + sc_PEI_bs:sc_PEI_delta + sc_TEI_bs:sc_PEI_bs + sc_TEI_delta:sc_PEI_delta + (1|species)

Inference: variational-Bayes via statsmodels.BinomialBayesMixedGLM (fast first pass) and full-posterior NUTS via bambi/PyMC, 4 chains × 2000 samples (authoritative HDIs).

Tier 2 — SSP3-7.0 future projection. DestinE Climate DT IFS-NEMO standard SSP3-7.0 GRIB files retrieved via polytope on LUMI for the 2020–2029 and 2030–2039 horizons, decoded with eccodes (Python API, NESTED-aware), subset to pre-computed Iberian HEALPix nside=128 cells. The future-period TEI_delta and PEI_delta are computed on the SAME substrate the GLMM was fit on (no cross-substrate aggregation step). Per-species ranking is reported following the protocol established in the methodological sibling chain (n_cells ≥ 10, main-effects-only η at projection time).""";
    <https://w3id.org/sciencelive/o/terms/hasScopeDescription> """SCOPE: the GLMM coefficient on standardised TEI_delta at HEALPix nside=128 (the native pixelisation of DestinE Climate DT IFS-NEMO standard), Iberian Bombus only.

IN SCOPE
  - Soroye 2020's GLMM specification (identical to the canonical nside=64 sibling).
  - Soroye 2020's CRU TS 3.24.01 climate inputs (identical, kept unchanged).
  - HEALPix-NESTED nside=128 on the WGS84 ellipsoid (~46 km cells; the native DestinE Climate DT pixelisation).
  - Tier 1 historical fit on the 1901–1974 baseline period and 2000–2014 recent period.
  - Tier 2 SSP3-7.0 future projection at substrate-matched nside=128 (no parent-aggregation deviation between fit and projection grids).

OUT OF SCOPE for this Replication Study (handled by separate chains)
  - The canonical CEA + nside=64 substrate-comparison at coarser resolution — see weatherxbiodiversity-projection.
  - Cross-substrate methodological diagnostic — see weatherxbiodiversity-substrate-sensitivity.
  - Bombus species outside the Iberian peninsula.""";
    <https://w3id.org/sciencelive/o/terms/targetsClaim> <https://w3id.org/sciencelive/np/RAh7NYjme8dajwxnoBfbOjsd1L76LQfN-pMEajIwiRDJE/soroye2020-tei-delta-positive-iberia-nside64> .
}

sub:provenance {
  sub:assertion prov:wasAttributedTo <https://orcid.org/0000-0002-1784-2920> .
}

sub:pubinfo {
  <https://orcid.org/0000-0002-1784-2920> <http://xmlns.com/foaf/0.1/name> "Anne Fouilloux" .
  
  this: dc:created "2026-05-11T19:28:01.754Z"^^xsd:dateTime;
    dc:creator <https://orcid.org/0000-0002-1784-2920>;
    dc:license <https://creativecommons.org/licenses/by/4.0/>;
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    npx:wasCreatedAt <https://platform.sciencelive4all.org>;
    <http://www.w3.org/2000/01/rdf-schema#label> "TEI mechanism — HEALPix nside=128 substrate extension on Iberian Bombus (full GLMM refit at native DestinE Climate DT pixelisation)";
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