Selected computational projects. Code and documentation on GitHub.
A scanpy/squidpy pipeline for preprocessing, clustering, and spatial-domain analysis, with a PyTorch cell-type classifier benchmarked against a scikit-learn baseline and interpreted via feature importance.
scanpy · squidpy · PyTorch · scikit-learn Repository →Reproducible pipeline building population-stratified ceRNA and gene-regulatory networks from RNA-seq and TCGA, with multi-criterion axis prioritization and druggable-target mapping via a custom DGIdb GraphQL integration.
R · DESeq2 · TCGAbiolinks · Cytoscape Code in preparation →WGCNA and differential-expression integration with a nested leave-one-out pipeline (LASSO; SVM/RF/ANN) identifying the lncRNA PCSEAT, interpreted with SHAP and permutation importance and validated in an independent cohort.
R · Python · scikit-learn · WGCNA Code in preparation →