genebench-pro-public-package

GeneBench-Pro Public Case Studies This repository contains public GeneBench-Pro case studies. It is the self-contained package intended for public distribution, including Hugging Face publication. Package Layout Each problem directory contains only the release-facing assets: `eval_config.json`: the public task, data-file list, answer schema, ground truth, grader contract, and eval UUID. `data_files/`: the staged files visible to an agent for that problem. `report_public.pdf`: the public scientific case-study report. Use each problem's `eval_config.json` for the task, answer schema, reference values, and grading contract. The ground-truth answers and grader tolerances are intentionally public. This package is for public case studies, reproducibility, and model-analysis examples, not for a hidden-answer leaderboard. The staged records are released as problem-local benchmark files. The task prompts use the provenance statement: `Data provenance is uncertain; use your best scientific judgement`. `problems.csv` provides a Hugging Face-friendly one-row-per-problem summary table and primary package inventory. `manifest.json` includes per-problem file paths, SHA-256 checksums, and file sizes; `checksums.sha256` provides package-wide integrity information in a standard flat-file format. Problems | Order | Eval ID | Public title | Domain | |---:|---|---|---| | 0 | `multiparent_qtl_hmm_lmm` | Multi-parent QTL mapping with founder reconstruction | Statistical genetics | | 1 | `statgen_cis_mvmr_winnerscurse_scaling_ldaware` | LD-aware cis-MVMR with winner's-curse correction | Proteomics / statistical genetics | | 2 | `txr1_mtb_causal_sv` | Synthetic structural-variant driven tumor therapy decision | Cancer somatic / clinical genomics | | 3 | `structural_inversion_subhap_expression_risk` | Structural inversion subhaplotype expression and disease risk | Clinical genomics | | 4 | `wf_selection` | Wright-Fisher selection inference from allele-frequency trajectories | Population gene