- Add MappingValidator with configurable success rate thresholds (min_success_rate, warn_threshold) - Add validate_gene_universe for gene count, format, and duplicate checks - Add save_unmapped_report for manual review output - Implement 15 comprehensive tests with mocked mygene responses (no real API calls) - Tests cover: successful mapping, notfound handling, uniprot list parsing, batching, validation gates, universe validation
- PipelineStore class for DuckDB-based storage - save_dataframe/load_dataframe for polars and pandas - Checkpoint system with has_checkpoint and metadata tracking - Parquet export capability - Context manager support
