gbanyan
e2a3dc2bc8
gnomAD v4.1 gene_id column is mixed: ~101K Ensembl IDs + ~111K NCBI numeric. Now falls back to gene_symbol → gene_universe lookup for non-ENSG entries. Coverage: 78.5% → 90.3% (17,875 → 20,555 genes with gnomAD scores). Sufficient evidence (≥4 layers): 19,946 → 20,683 genes. Validation median percentile: 79.9% → 81.1%. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
46 lines
894 B
Markdown
46 lines
894 B
Markdown
# Pipeline Reproducibility Report
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**Run ID:** `093b405b-5a20-4f35-b5b8-04f02451789d`
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**Timestamp:** 2026-02-15T21:49:14.940206+00:00
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**Pipeline Version:** 0.1.0
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## Parameters
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**Scoring Weights:**
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- gnomAD: 0.20
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- Expression: 0.20
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- Annotation: 0.15
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- Localization: 0.15
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- Animal Model: 0.15
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- Literature: 0.15
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## Data Versions
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- **ensembl_release:** 113
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- **gnomad_version:** v4.1
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- **gtex_version:** v8
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- **hpa_version:** 23.0
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## Software Environment
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- **python:** 3.14.3
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- **polars:** 1.38.1
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- **duckdb:** 1.4.4
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## Filtering Steps
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| Step | Input Count | Output Count | Criteria |
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|------|-------------|--------------|----------|
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| load_scored_genes | 0 | 0 | |
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| apply_tier_classification | 0 | 0 | |
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| write_candidate_output | 0 | 0 | |
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| generate_visualizations | 0 | 0 | |
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## Tier Statistics
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- **Total Candidates:** 21177
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- **HIGH:** 82
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- **MEDIUM:** 9626
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- **LOW:** 11469
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