AmeyaHarmalkar
Scientist @ Generate:Biomedicines Previously: Johns Hopkins ChemE
Johns Hopkins UniversityCambridge, MA
Pinned Repositories
BioPhi
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.
chroma-pytorch
Implementation of Chroma, generative models of protein using DDPM and GNNs, in Pytorch
ESM
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
Lazor
Lazor Code
mdanalysis
MDAnalysis is a Python library to analyze molecular dynamics trajectories.
Project-on-Selfassembly-of-SAP
ProteinMPNN
Code for the ProteinMPNN paper
therML
The official repository for TherML - a machine learning approach to predict scFv and antibody thermostability
AlphaRED
AlphaFold-initiated replica exchange protein docking
mdanalysis
MDAnalysis is a Python library to analyze molecular dynamics simulations.
AmeyaHarmalkar's Repositories
AmeyaHarmalkar/therML
The official repository for TherML - a machine learning approach to predict scFv and antibody thermostability
AmeyaHarmalkar/Lazor
Lazor Code
AmeyaHarmalkar/BioPhi
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.
AmeyaHarmalkar/chroma-pytorch
Implementation of Chroma, generative models of protein using DDPM and GNNs, in Pytorch
AmeyaHarmalkar/ESM
Evolutionary Scale Modeling (esm): Pretrained language models for proteins
AmeyaHarmalkar/mdanalysis
MDAnalysis is a Python library to analyze molecular dynamics trajectories.
AmeyaHarmalkar/Project-on-Selfassembly-of-SAP
AmeyaHarmalkar/ProteinMPNN
Code for the ProteinMPNN paper