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gnn-pytorch's Introduction

GNN-Pytorch

GNN方法和模型的Pytorch实现。Pytorch implementation of GNN.

这里更注重方法的学习,而不是获得更高的结果。


节点分类 - Node Classification

使用的数据集列表,有条件可以使用OGB数据集

Dataset Nodes Edges Node Attr. Classes Train Valid Test
Cora 2708 5429 1433 7 140 500 1000
Cora-Full 2708 5429 1433 7 1208 500 1000
Citeseer 3327 4732 3703 6 120 500 1000
Citeseer-Full 3327 4732 3703 6 1827 500 1000
Pubmed 19717 44338 500 3 60 500 1000
Pubmed-Full 19717 44338 500 3 18217 500 1000

各方法实验结果(Accuracy)列表:

Status Method Paper Cora Citeseer Pubmed
✔️ GCN Kipf and Welling, 2017 0.819 0.702 0.790
✔️ GraphSAGE Hamilton and Ying et al., 2017 0.801 0.701 0.778
✔️ GAT Velickovic et al., 2018 0.824 0.719 0.782
✔️ FastGCN* Chen and Ma et al., 2018 0.854 0.779 0.855
✔️ GRAND Feng and Zhang et al., 2020 0.839 0.726 0.797

* 使用Cora-Full,Pubmed-Full和Citeseer-Full数据集训练并评价。


图分类 - Graph Classification

使用的数据集列表,更多的数据集见TUDataset,有条件可以使用OGB数据集

Dataset Graphs Avg. Nodes Avg. Edges Node Attr. Classes Train Valid Test
DD 1178 284.32 715.66 89 2 826 117 235
NCI1 4110 29.87 32.30 37 2 2877 411 822
PROTEINS 1113 39.06 72.82 4 2 780 111 222

各方法实验结果(Accuracy)列表:

Status Method Paper DD NCI1 PROTEINS
DiffPool Ying et al., 2018
Graph U-Nets Gao et al., 2019
✔️ SAGPoolg Lee and Lee et al., 2019 0.723 0.763 0.757
✔️ SAGPoolh Lee and Lee et al., 2019 0.745 0.648 0.743
✔️ MinCutPool Bianchi and Grattarola et al., 2020 0.770 0.742 0.766

环境配置 - Packages

依赖 版本 安装
python 3.8.6 conda create --name gnn python=3.8.6
numpy 1.20.0 pip install numpy==1.20.0
scipy 1.6.0 pip install scipy==1.6.0
pyyaml 5.4.1 pip install pyyaml==5.4.1
scikit-learn 0.24.1 pip install scikit-learn==0.24.1
pytorch 1.7.1 conda install pytorch==1.7.1 cudatoolkit=11.0 -c pytorch
torch-geometric 1.6.3 Installation

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gnn-pytorch's Issues

A question about MinCutPool implementation

Hi Qixun,

Thanks for your great efforts in reimplementing all those models! I have a simple question about the implementation details of MincutPool:

For layers.py (184 - 188) in MinCutPool, we are supposed to get the degree matrix of A, but I feel a bit lost about your implementation, could you provide some clarifications about that?


D_flat = torch.sum(A, dim=-1)
D_eye = torch.eye(D_flat.size(1)).type_as(A).to(device)
D_flat = D_flat.unsqueeze(2).expand(*D_flat.size(), D_flat.size(1))
D = D_eye * D_flat

Input dataset format for graph classification

@quqixun thanks for sharing this super code base just wanted to knw what type of input has to be passed to the graph classification modules since when we download directly we have the following files
image

should we perform any preprocessing ? thanks in advance

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