Biomedical Informatics Research and Data Science @ Dartmouth

Code for "Cross-Modality Learning for Predicting IHC Biomarkers from H&E-Stained Whole-Slide Images"

Code for the Nature Scientific Reports paper "Pathologist-level classification of histologic patterns on resected lung adenocarcinoma slides with deep neural networks." A sliding window framework for classification of high resolution whole-slide images, often microscopy or histopathology images.

DPool; Previously POPPSlide: Patient Outcome Prediction Pipeline using Whole Slide Images

Extract tissues from WSI

Graph Convolutional Networks for Whole-Slide Analysis in PyTorch

Code for "Generative Image Translation for Data Augmentation in Colorectal Histopathology Images" full paper at ML4H Workshop at NeurIPS 2019.

Code for "Multi-Ontology Refined Embeddings (MORE): A Hybrid Multi-Ontology and Corpus-based Semantic Representation Model for Biomedical Concepts" in the Journal of Biomedical Informatics.

Annotates concepts in patient-physician office visit transcripts.