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1. mahmoodlab/CORAL mahmoodlab/CORAL Public

   Spatial biology processing suite

   Jupyter Notebook 82 13

2. Fusion-timing-in-channel-adaptive-models Fusion-timing-in-channel-adaptive-models Public

   Channel-adaptive microscopy ML pipeline (CHAMMI): variable-channel dataloaders + robust fusion models (BoC/SetTransformer/ViT) with strong OOD results.

   Python 1 1

3. PathMAP PathMAP Public

   End-to-end WSI tumor detection pipeline (CAMELYON16): tiling + stain norm + ResNet baselines + TTA/morphology post-processing (+23% IoU).

   Python

4. GraphRAG-Research-Assistant GraphRAG-Research-Assistant Public

   A GraphRAG implementation for use with research papers. Built using LlamaIndex, Neo4j and a local LLM instance: Qwen2.5.

   Python

5. Hypoxia-classification-using-RNAseq-data-from-patients-with-a-metastatic-adenocarcinoma Hypoxia-classification-using-RNAseq-data-from-patients-with-a-metastatic-adenocarcinoma Public

   Hypoxia and Normixia classification using RNA sequencing data from patients with a metastatic adenocarcinoma.

   Jupyter Notebook

6. ProteomicsAllignment ProteomicsAllignment Public

   R