Variational Flow Matching for Graph Generation
Floor Eijkelboom, Grigory Bartosh, Christian Andersson Naesseth, Max Welling, Jan-Willem van de Meent
Abstract
We present a formulation of flow matching as variational inference, which we refer to as variational flow matching (VFM). Based on this formulation we develop CatFlow, a flow matching method for categorical data. CatFlow is easy to implement, computationally efficient, and achieves strong results on graph generation tasks. In VFM, the objective is to approximate the posterior probability path, which is a distribution over possible end points of a trajectory. We show that VFM admits both the CatFlow objective and the original flow matching objective as special cases. We also relate VFM to score-based models, in which the dynamics are stochastic rather than deterministic, and derive a bound on the model likelihood based on a reweighted VFM objective. We evaluate CatFlow on one abstract graph generation task and two molecular generation tasks. In all cases, CatFlow exceeds or matches performance of the current state-of-the-art models.
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Install the CLIlune papers fulltext abb7934d-6805-4ab4-b1ef-008d20c1fdabCited by top-tier papers40
- Categorical Flow MapsDaan Roos, Oscar Davis, Floor Eijkelboom, Michael Bronstein et al.ICML 2026 · 23 citations
- Modeling Microenvironment Trajectories on Spatial Transcriptomics with NicheFlowKristiyan Sakalyan, Alessandro Palma, Filippo Guerranti, Fabian J. Theis et al.NeurIPS 2025 · 13 citations
- Bures-Wasserstein Flow Matching for Graph GenerationKeyue Jiang, Jiahao Cui, Xiaowen Dong, Laura ToniICLR 2026 · 10 citations
- Riemannian Variational Flow Matching for Material and Protein DesignOlga Zaghen, Floor Eijkelboom, Alison Pouplin, Cong Liu et al.ICLR 2026 · 10 citations
- HOG-Diff: Higher-Order Guided Diffusion for Graph GenerationYiming Huang, Tolga BirdalICLR 2026 · 9 citations
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- Denoising Diffusion Probabilistic ModelsJonathan Ho, Ajay Jain, Pieter AbbeelNeurIPS 2020 · 35,902 citations
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- Denoising Diffusion Implicit ModelsJiaming Song, Chenlin Meng, Stefano ErmonICLR 2021 · 11,743 citations
- Structured Denoising Diffusion Models in Discrete State-SpacesJacob Austin, Daniel D. Johnson, Jonathan Ho, Daniel Tarlow et al.NeurIPS 2021 · 2,256 citations
- Score-Based Generative Modeling through Stochastic Differential EquationsYang Song, Jascha Sohl-Dickstein, Diederik P. Kingma, Abhishek Kumar et al.ICLR 2021 · 1,270 citations
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