yehlincho

protein-frame-flow

Fast protein backbone generation with SE(3) flow matching.

_2023_Blaabjerg_SSEmb

ProLLaMA

A Protein Large Language Model for Multi-Task Protein Language Processing

LLM101n

LLM101n: Let's build a Storyteller

AHoJ-project

:wave: Webserver & command-line tool for search of APO (unbound) protein structures from HOLO (bound) forms and vice versa. http://apoholo.cz

ZEPPI

A method designed for proteome-scale sequence-based evaluation of protein-protein interfaces as defined by structural models of protein-protein interaction complexes.

ired_code_release

Pro-FSFP

Pro-FSFP: Few-Shot Protein Fitness Prediction

Prompt-Engineering-Guide

🐙 Guides, papers, lecture, notebooks and resources for prompt engineering

litgpt

20+ high-performance LLMs with recipes to pretrain, finetune and deploy at scale.

500-AI-Machine-learning-Deep-learning-Computer-vision-NLP-Projects-with-code

500 AI Machine learning Deep learning Computer vision NLP Projects with code

awesome-artificial-intelligence

A curated list of Artificial Intelligence (AI) courses, books, video lectures and papers.

Str2Str

Codebase of the paper "Str2Str: A Score-based Framework for Zero-shot Protein Conformation Sampling" (ICLR 2024)

peft_proteomics

LoRA for protein language models

mdlm

Simplified Masked Diffusion Language Model

gvp-pytorch

Geometric Vector Perceptrons --- a rotation-equivariant GNN for learning from biomolecular structure

rnaflow

RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching

alphamissense

genie

De Novo Protein Design by Equivariantly Diffusing Oriented Residue Clouds

genie2

Protein structure diffusion model for unconditional protein generation and motif scaffolding

protpardelle

Diffusion-based all-atom protein generative model.

_2022_ML-ddG-Blaabjerg

PPIformer

Learning to design protein-protein interactions with enhanced generalization (ICLR24)

evo

Biological foundation modeling from molecular to genome scale

Diffusion-LM

Diffusion-LM

MET_KinaseDomain_DMS

DMS fitness scores and analysis for the MET kinase domain

esm

awesome-protein-representation-learning

Awesome Protein Representation Learning

dssp

Application to assign secondary structure to proteins

protein-dpo

Aligning protein generative models with experimental fitness