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omegafold

OmegaFold Release Code

ontoprotein

Code and datasets for the ICLR2022 paper "OntoProtein: Protein Pretraining With Gene Ontology Embedding"

openai-cookbook

Examples and guides for using the OpenAI API

openfold

Trainable PyTorch reproduction of AlphaFold 2

openfold2

Attempt at reproduction of AlphaFold2

openmm-torch

OpenMM plugin to define forces with neural networks

optmaven_2.0

paddlehelix

Bio-Computing Platform Featuring Large-Scale Representation Learning and Multi-Task Deep Learning “螺旋桨”生物计算工具集

papers_for_protein_design_using_dl

List of papers about Proteins Design using Deep Learning

progen

Official release of the ProGen models

prompt-engineering-guide

Guide and resources for prompt engineering

prose

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

protein-sequence-models

prott5dst

Alignment-free structure prediction using protein language models

prottrans

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.

pythonnumericaldemos

Well-documented Python demonstrations for spatial data analytics, geostatistical and machine learning to support my courses.

pytorch-deep-learning

Materials for the Learn PyTorch for Deep Learning: Zero to Mastery course.

pytorch-image-models

PyTorch image models, scripts, pretrained weights -- ResNet, ResNeXT, EfficientNet, EfficientNetV2, NFNet, Vision Transformer, MixNet, MobileNet-V3/V2, RegNet, DPN, CSPNet, and more

pytorch_bert_text_classification

还在调试

raptorxfold

revisiting-plms

Revisiting Evolution-based & free protein language models

rfdiffusion

Code for running RFdiffusion

rgn2

rl4lms

A modular RL library to fine-tune language models to human preferences

rosetta-dl

A bundle of deep-learning packages for biomolecular structure prediction and design contributed to the Rosetta Commons

rosettafold

This package contains deep learning models and related scripts for RoseTTAFold

rosettafold2na

RoseTTAFold2 protein/nucleic acid complex prediction

sapiens

Sapiens is a human antibody language model based on BERT.

se3_diffusion

Implementation for SE(3) diffusion model with application to protein backbone generation

smt-dta

SMT-DTA: Improving Drug-Target Affinity Prediction with Semi-supervised Multi-task Training