The official implementation of DiffAbXL benchmarked in the paper "Exploring Log-Likelihood Scores for Ranking Antibody Sequence Designs", formerly titled "Benchmarking Generative Models for Antibod…

Colab Notebooks covering deep learning tools for biomolecular structure prediction and design

DeepSpeed is a deep learning optimization library that makes distributed training and inference easy, efficient, and effective.

Official repository for the ProteinGym benchmarks

Generative Language Modeling for Antibody Design

Protein language model customized for antibodies

Public repository describing training and testing of AntiBERTa.

An antibody-specific language model focusing on NGL prediction

Get up and running with Llama 3.3, Mistral, Gemma 2, and other large language models.

A heuristic method for fast BCR clonal family inference from large-scale AIRR-seq data

Antibody-specific masked language model

Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.

Mutation effects predicted from sequence co-variation

A generative latent variable model for biological sequence families.

AbLang: A language model for antibodies

ProtTrans is providing state of the art pretrained language models for proteins. ProtTrans was trained on thousands of GPUs from Summit and hundreds of Google TPUs using Transformers Models.

Efficient evolution from protein language models

Fitness landscapes for antibodies

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

A machine-learning package for navigating combinatorial protein fitness landscapes.

MSA Transformer reproduction code