AI Lab, Westlake University

openmixup

CAIRI Supervised, Semi- and Self-Supervised Visual Representation Learning Toolbox and Benchmark

Awesome-Mixup

[Survey] Awesome List of Mixup Augmentation and Beyond (https://arxiv.org/abs/2409.05202)

A2MIM

[ICML 2023] Architecture-Agnostic Masked Image Modeling -- From ViT back to CNN

DMT-learn

An Explainable Deep Network for Dimension Reduction

Backbone-vs-Optimizer

A Decade’s Battle on Bias of Visual Backbone and Optimizer

PoincareDMT

FoldToken_open

AI-Bio

CAIRI github io

awesome-graph-self-supervised-learning

Code for TKDE paper "Self-supervised learning on graphs: Contrastive, generative, or predictive"

awesome-protein-representation-learning

Awesome Protein Representation Learning

CBGBench

Official code repository of CBGBench: Fill in the Blank of Protein-Molecule Complex Binding Graph

D3FG

This is the official repository of paper - Functional-Group-Based Diffusion for Pocket-Specific Molecule Generation and Elaboration

diffbp

This is the official repository of thr paper DiffBP: Generative Diffusion of 3D Molecules for Target Protein Binding.

DiscoGNNs

[ICDE 2024]Official implementation of ICDE 2024 paper "DiscoGNN: A Sample-Efficient Framework for Self-Supervised Graph Representation Learning"

FF-G2M

Code for AAAI 2023 (Oral) paper "Extracting Low-/High- Frequency Knowledge from Graph Neural Networks and Injecting it into MLPs: An Effective GNN-to-MLP Distillation Framework"

FoldGPT_open

FoldMaskGPT

GeoAB

This is the official repository of paper - GeoAB: Towards Realistic Antibody Design and Reliable Affinity Maturation (ICML2024)

GraphsGPT

The official implementation of the ICML'24 paper "A Graph is Worth K Words: Euclideanizing Graph using Pure Transformer".

HGMD

Code fo CIKM2024 paper "Teach Harder, Learn Poorer: Rethinking Hard Sample Distillation for GNN-to-MLP Knowledge Distillation"

MAPE-PPI

Code for ICLR 2024 (Spotlight) paper "MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding"

OpenSTL

OpenSTL: A Comprehensive Benchmark of Spatio-Temporal Predictive Learning

OT-Cleaner

[ICASSP 2022]OT-Cleaner: Label Correction as Optimal Transport

ppflow

This repository is the official code source of PPFlow: Target-Aware Peptide Design with Torsional Flow Matching (ICML2024)

Prompt-DDG

Code for ICML 2024 paper "Learning to Predict Mutational Effects of Protein-Protein Interactions by Microenvironment-aware Hierarchical Prompt Learning"

ProteinInvBench

The official implementation of the NeurIPS'23 paper ProteinInvBench: Benchmarking Protein Design on Diverse Tasks, Models, and Metrics

R3Design

RFold

The official implementation of the ICML'24 paper RFold: Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective..

TGS

Code for TKDE paper "A Teacher-Free Graph Knowledge Distillation Framework with Dual Self-Distillation"

VQDNA

[ICML 2024] VQDNA: Unleashing the Power of Vector Quantization for Multi-Species Genomic Sequence Modeling