SPYfighting

alphafold

Open source code for AlphaFold.

Ankh

Ankh: Optimized Protein Language Model

ArDCA.jl

Autoregressive networks for protein

bmDCA

Fork of matteofigliuzzi/bmDCA repository for Boltzmann-machine Direct Coupling Analysis (bmDCA).

ConFit

ctrl

Conditional Transformer Language Model for Controllable Generation

d2l-zh

《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被60多个国家的400多所大学用于教学。

DeepLearning-MuLi-Notes

Notes about courses Dive into Deep Learning by Mu Li

DeepSequence

A generative latent variable model for biological sequence families.

ECNet

An evolutionary context-integrated deep learning framework for protein engineering

SPYfighting/Ankh

Ankh: Optimized Protein Language Model

SPYfighting/ConFit

SPYfighting/d2l-zh

《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被60多个国家的400多所大学用于教学。

SPYfighting/DeepLearning-MuLi-Notes

Notes about courses Dive into Deep Learning by Mu Li

SPYfighting/efficient-evolution

Efficient evolution from protein language models

SPYfighting/esm

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

SPYfighting/evodiff

Generation of protein sequences and evolutionary alignments via discrete diffusion models

SPYfighting/foldseek

Foldseek enables fast and sensitive comparisons of large structure sets.

SPYfighting/GearNet

GearNet and Geometric Pretraining Methods for Protein Structure Representation Learning, ICLR'2023 (https://arxiv.org/abs/2203.06125)

SPYfighting/InstructPLM

The first large protein language model trained follows structure instructions.

SPYfighting/LigandMPNN

SPYfighting/linux-tutorial

:penguin: Linux教程，主要内容：Linux 命令、Linux 系统运维、软件运维、精选常用Shell脚本

SPYfighting/ML-Papers-Explained

Explanation to key concepts in ML

SPYfighting/NGS-analysis

All files relevant to perform paired-end NGS data analysis. The reported codes are associated with Zuercher, Kleefeldt, Funke, Birnbaum, Fredens et al. (2023).

SPYfighting/nlp-tutorial

Natural Language Processing Tutorial for Deep Learning Researchers

SPYfighting/OpenComplex

Trainable PyTorch framework for developing protein, RNA and complex models.

SPYfighting/papers-for-molecular-design-using-DL

List of molecular design using Generative AI and Deep Learning

SPYfighting/papers_for_protein_design_using_DL

List of papers about Proteins Design using Deep Learning

SPYfighting/Pro-FSFP

Pro-FSFP: Few-Shot Protein Fitness Prediction

SPYfighting/ProstT5

Bilingual Language Model for Protein Sequence and Structure

SPYfighting/protein-transfer

SPYfighting/ProteinLM-TDG2-Mutation

Protein language models-assisted optimization of a uracil-N-glycosylase variant enables programmable T-to-G and T-to-C base editing

SPYfighting/ProteinMPNN

Code for the ProteinMPNN paper

SPYfighting/ProteinNPT

Official code repository for the paper "ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers"

SPYfighting/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.

SPYfighting/rf_diffusion_all_atom

Public RFDiffusionAA repo

SPYfighting/RFdiffusion

Code for running RFdiffusion

SPYfighting/RoseTTAFold-All-Atom

SPYfighting/SaProt

Official implementation of SaProt.

SPYfighting/weread2notion

将微信读书划线同步到Notion