Ameya Harmalkar's Projects
BioPhi is an open-source antibody design platform. It features methods for automated antibody humanization (Sapiens), humanness evaluation (OASis) and an interface for computer-assisted antibody sequence design.
Implementation of Chroma, generative models of protein using DDPM and GNNs, in Pytorch
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
Lazor Code
MDAnalysis is a Python library to analyze molecular dynamics trajectories.
Code for the ProteinMPNN paper
The official repository for TherML - a machine learning approach to predict scFv and antibody thermostability