yuanenming

transformers

🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.

pytorch-lightning

Pretrain, finetune and deploy AI models on multiple GPUs, TPUs with zero code changes.

paper-reading

深度学习经典、新论文逐段精读

vit-pytorch

Implementation of Vision Transformer, a simple way to achieve SOTA in vision classification with only a single transformer encoder, in Pytorch

machine-learning-notes

My continuously updated Machine Learning, Probabilistic Models and Deep Learning notes and demos (2000+ slides) 我不间断更新的机器学习，概率模型和深度学习的讲义(2000+页)和视频链接

NLP_ability

总结梳理自然语言处理工程师(NLP)需要积累的各方面知识，包括面试题，各种基础知识，工程能力等等，提升核心竞争力

lightning-hydra-template

PyTorch Lightning + Hydra. A very user-friendly template for ML experimentation. ⚡🔥⚡

imbalanced-dataset-sampler

A (PyTorch) imbalanced dataset sampler for oversampling low frequent classes and undersampling high frequent ones.

ogb

Benchmark datasets, data loaders, and evaluators for graph machine learning

alphafold2

To eventually become an unofficial Pytorch implementation / replication of Alphafold2, as details of the architecture get released

Machine-learning-for-proteins

Listing of papers about machine learning for proteins.

seqkit

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

portfolYOU

A beautiful portfolio Jekyll theme that works with GitHub Pages.

DeepPurpose

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

SimSiam

A pytorch implementation for paper 'Exploring Simple Siamese Representation Learning'

DiffuSeq

[ICLR'23] DiffuSeq: Sequence to Sequence Text Generation with Diffusion Models

tape

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

masif

MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.

unify-parameter-efficient-tuning

Implementation of paper "Towards a Unified View of Parameter-Efficient Transfer Learning" (ICLR 2022)

bio_embeddings

Get protein embeddings from protein sequences

provis

Official code repository of "BERTology Meets Biology: Interpreting Attention in Protein Language Models."

minimal-text-diffusion

A minimal implementation of diffusion models for text generation

dimenet

DimeNet and DimeNet++ models, as proposed in "Directional Message Passing for Molecular Graphs" (ICLR 2020) and "Fast and Uncertainty-Aware Directional Message Passing for Non-Equilibrium Molecules" (NeurIPS-W 2020)

trDesign

trRosetta for protein design

e2efold

pytorch implementation for "RNA Secondary Structure Prediction By Learning Unrolled Algorithms"

BAAI-Monthly-

Comprehensive and precise reviews of advance AI subfields.

MEANTIME

mb-str

MB-STR SIGIR22

AI-TAC

protein-structure-prediction-models

A list of papers using deep learning for protein strucuture prediction.