Full-Graph vs. Mini-Batch Training: Comprehensive Analysis from a Batch Size and Fan-Out Size Perspective
It provides practical guidance for tuning hyperparameters in GNN training under resource constraints, which is an incremental contribution to the field of graph machine learning.
This paper tackles the problem of comparing full-graph and mini-batch training for Graph Neural Networks (GNNs) by analyzing the impact of batch size and fan-out size, finding that full-graph training does not always outperform well-tuned mini-batch settings in model performance or computational efficiency.
Full-graph and mini-batch Graph Neural Network (GNN) training approaches have distinct system design demands, making it crucial to choose the appropriate approach to develop. A core challenge in comparing these two GNN training approaches lies in characterizing their model performance (i.e., convergence and generalization) and computational efficiency. While a batch size has been an effective lens in analyzing such behaviors in deep neural networks (DNNs), GNNs extend this lens by introducing a fan-out size, as full-graph training can be viewed as mini-batch training with the largest possible batch size and fan-out size. However, the impact of the batch and fan-out size for GNNs remains insufficiently explored. To this end, this paper systematically compares full-graph vs. mini-batch training of GNNs through empirical and theoretical analyses from the view points of the batch size and fan-out size. Our key contributions include: 1) We provide a novel generalization analysis using the Wasserstein distance to study the impact of the graph structure, especially the fan-out size. 2) We uncover the non-isotropic effects of the batch size and the fan-out size in GNN convergence and generalization, providing practical guidance for tuning these hyperparameters under resource constraints. Finally, full-graph training does not always yield better model performance or computational efficiency than well-tuned smaller mini-batch settings. The implementation can be found in the github link: https://github.com/LIUMENGFAN-gif/GNN_fullgraph_minibatch_training.