Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.

Generation of protein sequences and evolutionary alignments via discrete diffusion models

A Python API for the RCSB Protein Data Bank (PDB)

FAPLM: A Drop-in Efficient Pytorch Implementation of Protein Language Models

AbLang: A language model for antibodies

Lbster: Language models for Biological Sequence Transformation and Evolutionary Representation

Implementation of ProteinBERT in Pytorch

Neural Networks for Protein Sequence Alignment

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)

Affinity Protein-Protein Transformers—State of the art protein-protein binding affinity in seconds!

Multi-task and masked language model-based protein sequence embedding models.

Inference code for PoET: A generative model of protein families as sequences-of-sequences

Variational autoencoder for protein sequences - add metal binding sites and generate sequences for novel topologies

PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.

The official code for "TaxDiff: Taxonomic-Guided Diffusion Model for Protein Sequence Generation"

Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.

A fully automated gene annotator from RNA-Seq expression data

Paratope Prediction using Deep Learning

Official repository for discrete Walk-Jump Sampling (dWJS)

Transformer Based Language Model for Peptide Property Prediction