AUPRC (weighted average over chromosomes of per-chromosome AUPRC; subset 'all') of SpeciesLM.LogisticRegression.chrom (TraitGym) on TraitGym Mendelian traits, matched 9 controls
0.193 AUPRC (weighted average over chromosomes of per-chromosome AUPRC; subset 'all')
Methods
- Tested configuration
- SpeciesLM.LogisticRegression.chrom (TraitGym)
- Protocol
- TraitGym Mendelian traits, linear-probing, AUPRC by chromosome weighted average
- Dataset
- TraitGym Mendelian traits, matched 9 controls
- Procedure
- TraitGym Mendelian traits, linear-probing, AUPRC by chromosome weighted average
- Evaluation
- SpeciesLM.LogisticRegression.chrom on TraitGym mendelian_traits_matched_9
- Coverage
- Not reported scored / Not reported eligible
- Uncertainty
- SE 0.02116532339560903
- Evidence
- Independent external evaluation · source checkedTraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) · mendelian_traits_matched_9/AUPRC_by_chrom_weighted_average/all/SpeciesLM.LogisticRegression.chrom.csv, column 'score' (standard error in column 'se')
A source-checked result verifies the numerical transcription, not every model or protocol detail. Evaluation metadata: source checked. Source checked does not mean independently reproduced.
Reproduction
- Split
- Leave-one-chromosome-out
- Adaptation
- linear-probing
- Scoring implementation
- AUPRC per chromosome, weighted average by sample size
No execution recipe has been verified for this exact configuration and evaluation. A benchmark's general instructions may use different inputs, splits or model settings.
Reproducing this published result requires matching its model configuration, data, split and scorer. Source checking or a successful smoke test does not establish score reproduction.
Evidence
Source checking verifies the cited claim or transcription. It does not establish independent reproduction.
Evidence table
Inspect claims, sources and review details
Trace each statement to its source and review. A context-only reference supports the record generally; it does not verify an individual field. Source checking does not reproduce an experiment.
One row per statement and cited source. Multiple citations are not independent evaluations. Shared locators are labelled explicitly.
1 evidence row matching the loaded filters
| Property and statement | Original source and location | Review and provenance |
|---|---|---|
| Reported result 0.1928157486052764 Individual claims | TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) mendelian_traits_matched_9/AUPRC_by_chrom_weighted_average/all/SpeciesLM.LogisticRegression.chrom.csv, column 'score' (standard error in column 'se') Version: Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/ | source checked ["source-hash-verification","deterministic-table-parse","independent-cell-check"] · 2026-10-11 independent paper Audit detailsExtraction: Read the single data row (model, metric, score, se) of each pinned CSV with tools/extract_traitgym.py; the metric column is asserted to be AUPRC and the model column to match the file name. File SHA-256 08987d1044887824fad3f0e6f1bf0f295264b075e89f626e5c55a37cccea5861. Independent review 2026-10-11: value, locator, metric, unit, direction and linked configuration and protocol checked; corrections from the review applied by the extractor as listed in review.md. Field: Source artifact SHA-256: Hash scope: SHA-256 of a JSON bundle listing every retrieved CSV with its path, its own SHA-256 and its bytes (artifacts/traitgym-metrics-bundle.json.gz) Extraction artifact SHA-256: |
Sources and history
Release 2026-10-22-1b7cf027e4f6 · Record review: source checked
1 source record and release history
- TraitGym official metrics: AUPRC by chromosome, weighted average (Hugging Face dataset songlab/TraitGym) · Original source · Hugging Face dataset revision 1fde19555fe8c0a55b1382bdf4c6f7082209f566 (last modified 2025-03-25); 156 metric CSVs under {dataset}/AUPRC_by_chrom_weighted_average/all/
Technical metadata and extraction receipts
Stable ID: lit-genomics-20261011-traitgym-result-specieslm-logisticregression-chrom-mendelian-traits-matched-9
- metric
- auprc
- metric direction
- higher
- unit
- unitless
- printed value
- 0.1928157486052764
- source locator
- mendelian_traits_matched_9/AUPRC_by_chrom_weighted_average/all/SpeciesLM.LogisticRegression.chrom.csv, column 'score' (standard error in column 'se')
- review
- method: source-hash-verification; deterministic-table-parse; independent-cell-check; method note: Matched the archived bundle's SHA-256 and every per-file SHA-256 inside it; re-downloaded 3 CSVs from Hugging Face at revision 1fde1955 with matching hashes; all 156 printed, numeric and SE values equal the CSV score and se.; reviewer: claude; reviewer note: Claude review agent reviewer-gen-3, independent of the extractor lit-genomics; no human review claimed; date: 2026-10-11; artifact sha256: 44dfedc00ac5c7918b188af2a5a200f08da3b641f73d7d5327e26f94a7d0372e; retrieval url: https://huggingface.co/datasets/songlab/TraitGym/tree/1fde19555fe8c0a55b1382bdf4c6f7082209f566; note: Extraction: Read the single data row (model, metric, score, se) of each pinned CSV with tools/extract_traitgym.py; the metric column is asserted to be AUPRC and the model column to match the file name. File SHA-256 08987d1044887824fad3f0e6f1bf0f295264b075e89f626e5c55a37cccea5861. Independent review 2026-10-11: value, locator, metric, unit, direction and linked configuration and protocol checked; corrections from the review applied by the extractor as listed in review.md.
- numeric value
- 0.1928157486052764
- metric qualifier
- weighted average over chromosomes of per-chromosome AUPRC; subset 'all'
- uncertainty
- type: standard_error; value: 0.02116532339560903; method: bootstrap; printed: 0.02116532339560903; source column: se
- printed value basis
- Full-precision number as stored in the official CSV