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abdockgen

af2complex

Predicting direct protein-protein interactions with AlphaFold deep learning neural network models.

afdb-shapemer-darkness

alphafold

Open source code for AlphaFold.

alphafold_non_docker

AlphaFold2 non-docker setup

chatgpt_academic

科研工作专用ChatGPT拓展，特别优化学术Paper润色体验，支持自定义快捷按钮，支持自定义函数插件，支持markdown表格显示，Tex公式双显示，代码显示功能完善，新增本地Python/C++/Go项目树剖析功能/项目源代码自译解能力，新增PDF和Word文献批量总结功能/PDF论文全文翻译功能

codon-optimization

A neural based approach to the task of genetic codon optimization

colabfold

Making Protein folding accessible to all!

ecnet

An evolutionary context-integrated deep learning framework for protein engineering

esm

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

eve

Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Joint collaboration between the Marks lab and the OATML group.

fairseq

Facebook AI Research Sequence-to-Sequence Toolkit written in Python.

genhance

graphormer

Graphormer is a deep learning package that allows researchers and developers to train custom models for molecule modeling tasks. It aims to accelerate the research and application in AI for molecule science, such as material design, drug discovery, etc.

gvp-pytorch

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

ieconv_proteins

Intrinsic-Extrinsic Convolution and Pooling for Learning on 3D Protein Structures

localcolabfold

ColabFold on your local PC

machine-learning-for-proteins

Listing of papers about machine learning for proteins.

neurips19-graph-protein-design

Generative Models for Graph-Based Protein Design

openfold

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

papers_for_protein_design_using_dl

List of papers about Proteins Design using Deep Learning

parallelfold

Modified version of Alphafold to divide CPU part (MSA and template searching) and GPU part. This can accelerate Alphafold when predicting multiple structures

prime

PRIME Model (under review)

progen

Official release of the ProGen models

protein_seq_des

Code for our paper "Protein sequence design with a learned potential"

proteinmpnn

Code for the ProteinMPNN paper

saprot

Official implementation of SaProt.

sassena

Sassena — X-ray and neutron scattering calculated from molecular dynamics trajectories using massively parallel computers

tape

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

templ

The source code of: TemPL: A Novel Deep Learning Model for Zero-Shot Prediction of Protein Stability and Activity Based on Temperature-Guided Language Modeling