Jonathan Muhire Jonathan Muhire
Jonathan Muhire

I build intelligent systems that ship.

ML systems, data infrastructure, and applied AI.

Research and systems I've built.

IBD scRNA-seq Benchmarking

Donor-aware benchmarking of CFN, linear, and VAE model families on two independent IBD cohorts. Strict leakage-safe cross-validation. AUROC 0.978. Targeting bioRxiv.

Reproducible Biomedical Eval Framework

Protocol-locked comparison of CFN vs XGBoost/MLP/logistic on NHANES hypertension data. Leakage guardrails, fold validation, and automated expansion gates.

Agent Evaluation — Memory Ablations

ReAct agent with memory-mode ablations and needle-in-haystack benchmarks. Eval-driven development: write the eval before the agent can pass it.

Vesuvius Challenge — 3D Segmentation

3D volumetric deep learning for detecting ancient papyrus surfaces in CT scans of carbonized Herculaneum scrolls. Topology-aware loss, ensemble + TTA.

RenAIssance — GSoC 2025

AI pipeline for digitizing Renaissance-era manuscripts using LayoutLMv3 layout recognition and Tesseract OCR with post-correction.

Notes and breakdowns.

Open to research and systems roles.

Looking for teams building ML systems, data infrastructure, or applied AI.