Popular GitHub Repositories for Protein Sequences

Implementation of the model from "ProGen: Language Modeling for Protein Generation"

Generation of protein sequences and evolutionary alignments via discrete diffusion models

Implementation of ProteinBERT in Pytorch

AbLang: A language model for antibodies

Neural Networks for Protein Sequence Alignment

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

Progressive Transfer Learning for Peptide-Protein-Specific Interaction Profiling based on Interpretable Biological Sequence Pragmatic Analysis

Transformer Based Language Model for Peptide Property Prediction

SPECTRA: Spectral framework for evaluation of biomedical AI models

Repository for the paper "Optimal design of stochastic DNA synthesis protocols based on generative sequence models" (Weinstein et al., AISTATS, 2022).

Code for CELL-E: Biological Zero-Shot Text-to-Image Synthesis for Protein Localization Prediction

Multimodal Pretraining for Unsupervised Protein Representation Learning

Scalable Protein Language Model Finetuning with Distributed Learning and Advanced Training Techniques such as LoRA.

Differentiable Pairing using Alignment-based Language Models

LC-PLM: long-context protein language model based on BiMamba-S architecture

Multimodal encoder-only transformer model for image-based protein predictions

PyTorch Implementation of DeepSequence

deep learning experiments on biological sequences with PyTorch

Implement, train, tune, and evaluate a transformer model for antibody classification with this step-by-step code.

A tool for AMR gene family prediction, simple and ML-based