PPGNN: A Piece-Wise Polynomial Filtering Approach for Graph Neural Networks

This repo contains the code for the paper published at ECML PKDD 2022: Machine Learning and Knowledge Discovery in Databases. The link to our ECML publication can be found here and the link to the paper on arXiv can be found here.

Citation

If you find this work useful, please cite our paper. Note that the first three authors contributed equally to this work.

@InProceedings{10.1007/978-3-031-26390-3_25,
author="Lingam, Vijay
and Sharma, Manan
and Ekbote, Chanakya
and Ragesh, Rahul
and Iyer, Arun
and Sellamanickam, Sundararajan",
editor="Amini, Massih-Reza
and Canu, St{\'e}phane
and Fischer, Asja
and Guns, Tias
and Kralj Novak, Petra
and Tsoumakas, Grigorios",
title="A Piece-Wise Polynomial Filtering Approach for Graph Neural Networks",
booktitle="Machine Learning and Knowledge Discovery in Databases",
year="2023",
publisher="Springer International Publishing",
address="Cham",
pages="412--452",
abstract="Graph Neural Networks (GNNs) exploit signals from node features and the input graph topology to improve node classification task performance. Recently proposed GNNs work across a variety of homophilic and heterophilic graphs. Among these, models relying on polynomial graph filters have shown promise. We observe that polynomial filter models need to learn a reasonably high degree polynomials without facing any over-smoothing effects. We find that existing methods, due to their designs, either have limited efficacy or can be enhanced further. We present a spectral method to learn a bank of filters using a piece-wise polynomial approach, where each filter acts on a different subsets of the eigen spectrum. The approach requires eigendecomposition only for a few eigenvalues at extremes (i.e., low and high ends of the spectrum) and offers flexibility to learn sharper and complex shaped frequency responses with low-degree polynomials. We theoretically and empirically show that our proposed model learns a better filter, thereby improving classification accuracy. Our model achieves performance gains of up to {\$}{\$}{\backslash}sim {\$}{\$}∼6{\%} over the state-of-the-art (SOTA) models while being only {\$}{\$}{\backslash}sim {\$}{\$}∼2x slower than the recent spectral approaches on graphs of sizes up to {\$}{\$}{\backslash}sim {\$}{\$}∼169K nodes.",
isbn="978-3-031-26390-3"
}

Abstract

Graph Neural Networks (GNNs) exploit signals from node features and the input graph topology to improve node classification task performance. However, these models tend to perform poorly on heterophilic graphs, where connected nodes have different labels. Recently proposed GNNs work across graphs having varying levels of homophily. Among these, models relying on polynomial graph filters have shown promise. We observe that solutions to these polynomial graph filter models are also solutions to an overdetermined system of equations. It suggests that in some instances, the model needs to learn a reasonably high order polynomial. On investigation, we find the proposed models ineffective at learning such polynomials due to their designs. To mitigate this issue, we perform an eigendecomposition of the graph and propose to learn multiple adaptive polynomial filters acting on different subsets of the spectrum. We theoretically and empirically show that our proposed model learns a better filter, thereby improving classification accuracy. We study various aspects of our proposed model including, dependency on the number of eigencomponents utilized, latent polynomial filters learned, and performance of the individual polynomials on the node classification task. We further show that our model is scalable by evaluating over large graphs. Our model achieves performance gains of up to 5% over the state-of-the-art models and outperforms existing polynomial filter-based approaches in general.

Steps To Run

Install Anaconda basis this link.
Create and activate a conda environment (Note that we use Python 3.10.11):

conda create -n ppgnn python=3.10.11

conda activate ppgnn

Install the requirements basis the OS you are using:

pip install -r <os>_requirements.txt

#For example:

pip install -r linux_requirements.txt

Download the public datasets present in a drive link:

python src/download_datasets.py

Run the commands for a particular dataset given in scripts/all_commands.txt:

#For example:

$ cd ppgnn/src
$ python main.py --lr 0.005 --weight_decay 0.001 --hidden 64 --dropout 0.5 --K 2 --dprate 0.5 --Init Random --dataset Cora --split 2 --beta 0.293714046388829 --total_buckets 4 --evd_dims 256 --net PPGNN

People Involved

Contributing

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This project has adopted the Microsoft Open Source Code of Conduct. For more information see the Code of Conduct FAQ or contact opencode@microsoft.com with any additional questions or comments.

Trademarks

This project may contain trademarks or logos for projects, products, or services. Authorized use of Microsoft trademarks or logos is subject to and must follow Microsoft's Trademark & Brand Guidelines. Use of Microsoft trademarks or logos in modified versions of this project must not cause confusion or imply Microsoft sponsorship. Any use of third-party trademarks or logos are subject to those third-party's policies.

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aruniyer/ppgnn

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