Code & AI · Portfolio

Code & AI

Nine open-source computational projects spanning Claude Code / MCP, agentic LangGraph orchestration, CLIP-style PyTorch models, single-cell foundation-model evaluation, and vendor-agnostic lab automation. Drill into one of the three category pages, scroll for the interactive filter, or check the live GitHub activity at the bottom.

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Category · 01 Agents & MCP Claude Code Model Context Protocol servers, sub-agents, hooks, Claude Agent SDK headless apps, LangGraph orchestration over public biomedical APIs. Claude Code MCP LangGraph TypeScript Category · 02 ML & Foundation Models CLIP-style contrastive PyTorch alignment of imaging and transcriptomics; zero-shot evaluation of scGPT and Geneformer on neurodegeneration benchmarks. PyTorch CLIP scGPT Geneformer Category · 03 Bio Pipelines & Automation End-to-end Parkinson's target credentialing from single-nucleus data; CRISPR phenocopy atlas over PINK1/Parkin; vendor-agnostic iPSC liquid-handling toolkit; multi-neuron statistical comparator. Scanpy pyDESeq2 PyLabRobot NetworkX

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All Python TypeScript MCP / Claude Code LangGraph PyTorch Single-cell GitHub Actions Lab automation

01 · MCP bioscope TypeScript CLI built end-to-end on Claude Code with a custom MCP server over 4 bioinformatics APIs. TypeScriptMCPVitestGH Actions 02 · Python · MCP AutoMorphoTrack v2.2.0 Published Python package for organelle morphology, motility, colocalization — shipped with an 11-tool MCP server. PythonFastMCPscikit-imageCI matrix 03 · PyTorch · CLIP morph2expr CLIP-style contrastive alignment of Cell Painting morphology with L1000 transcriptomic signatures. PyTorchLightningHydraRDKit 04 · Foundation models scgpt-neurodegen-probe Zero-shot evaluation of scGPT & Geneformer on neurodegeneration tasks with biologically defensible ground truth. PyTorchtransformersScanpy 05 · scRNA-seq · DE pd-target-credentialing End-to-end Parkinson's target credentialing from substantia-nigra single-nucleus data + convergent evidence scoring. ScanpypyDESeq2HarmonyGraphQL 06 · Graph / ETL mitophagy-perturb-atlas CRISPR phenocopy atlas over the PINK1/Parkin mitophagy pathway, integrating DepMap + Replogle Perturb-Seq + Reactome. NetworkXPyVisscikit-learn 07 · Lab automation ipsc-screen-automation Vendor-agnostic Python toolkit driving Tecan / Hamilton / Opentrons through PyLabRobot with edge-effect-aware plate design. PyLabRobotOpentronsHypothesis 08 · Statistics AMTcomparison Multi-neuron statistical comparator across AMT outputs — Mann-Whitney U, Kruskal-Wallis, Cohen's d, Bonferroni. SciPypandasmatplotlib

Live · GitHub

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