Protein Language Model Python Packages

esmc-function-classifier

An Evolutionary-scale Model (ESM) for protein function prediction from amino acid sequences using the Gene Ontology (GO).

proteintensor

AI-native tensor format (.ptt) for protein structure ML. Convert mmCIF/PDB structures or raw sequences once, then load backbone, MSA, embeddings, and bond graphs in milliseconds. Feeds AlphaFold/Boltz pipelines. Zarr-backed, lossless, PyTorch/JAX-ready.

protembedder

Extract protein embeddings from FASTA files using ESM-2, ProtT5, and ProtBert models

proteinbert-pytorch-reproduction

Implementation of ProteinBERT, a deep language model designed for proteins.

antiberty-pytorch

An unofficial re-implementation of AntiBERTy, an antibody-specific protein language model, in PyTorch.

biocentral-api

Programmatic access to the biocentral ecosystem.

abyssal-pytorch

Implementation of Abyssal, a deep neural network trained with a new "mega" dataset to predict the impact of an amino acid variant on protein stability.

esmc-protein-function

An Evolutionary-scale Model (ESM) for protein function prediction from amino acid sequences using the Gene Ontology (GO).

sceptr

Highly informative TCR representation model

deepab-pytorch

An unofficial re-implementation of DeepAb, an interpretable deep learning model for antibody structure prediction.

antifp2

AntiFP2: A tool for prediction of Antifungal Proteins

protflash

ProtFlash: A lightweight protein language model

protlib-designer

Integer Linear Programming for Protein Library Design

spectrae

SPECTRA: Spectral framework for evaluation of biomedical AI models