✨ Analysis commits from Mikaela#24
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- Add analysis pipeline with comprehensive feature selection capabilities - Introduce evaluation module with Jaccard similarity metrics - Replace IO modules with simplified logistic regression datamodules and models - Add extensive documentation and validation notebooks - Update build configuration and dependencies - Remove deprecated IO components (pure_zarr, loading, etc.) This merge consolidates development work and establishes the core architecture for scalable feature selection on large count matrices.
- Add plot_weight_correlation method to modlyn.eval.CompareScores * Creates 3-panel correlation plots with scatter plot, distribution, and cell line analysis * Computes Pearson correlations between different methods' weights - Update validate_arrayloader_equivalence.ipynb with extensive visualizations * Add detailed weight comparison plots and heatmaps - Add clean comparison notebooks for Modlyn vs Scanpy vs scVI - Add demo_weight_correlation.ipynb for quick testing - Remove outdated/duplicate notebook files for cleaner repository
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