Add citation-neighbourhood sampling for deposit-first corpus#25
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VibeCodingScientist merged 1 commit intomainfrom Feb 28, 2026
Merged
Add citation-neighbourhood sampling for deposit-first corpus#25VibeCodingScientist merged 1 commit intomainfrom
VibeCodingScientist merged 1 commit intomainfrom
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Use OpenAlex to find papers that cite or are cited by deposit papers but lack PRIDE deposits themselves — natural negatives for meaningful evaluation at ~50% Physical coverage. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
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Summary
build_deposit_first_corpus()using OpenAlex citing/referenced papers as natural negatives_referenced_dois()(bibliography lookup) and_dois_to_pmids()(DOI→PMID resolution via OpenAlex)target_coverageparameter (default 50%) controls deposit/negative ratioTest plan
pytest tests/ -v)python pride_corpus.py --deposit-firstpapers.jsonlhas ~50% deposit coveragepython run_pride_poc.py --deposit-first --skip-corpus— hypothesis PASS🤖 Generated with Claude Code