Diffusion Earth Mover's Distance and Distribution Embeddings. - Alexander Tong 001; Guillaume Huguet; Amine Natik; Kincaid MacDonald; Manik Kuchroo; Ronald R. Coifman; Guy Wolf; Smita Krishnaswamy (ICML, 2021)

Embedding Signals on Knowledge Graphs with Unbalanced Diffusion Earth Mover's Distance. - Alexander Tong 001; Guillaume Huguet; Dennis L. Shung; Amine Natik; Manik Kuchroo; Guillaume Lajoie; Guy Wolf; Smita Krishnaswamy (CoRR, 2021)

Embedding Signals on Graphs with Unbalanced Diffusion Earth Mover's Distance. - Alexander Tong 001; Guillaume Huguet; Dennis L. Shung; Amine Natik; Manik Kuchroo; Guillaume Lajoie; Guy Wolf; Smita Krishnaswamy (ICASSP, 2022)

Manifold Interpolating Optimal-Transport Flows for Trajectory Inference. - Guillaume Huguet; Daniel Sumner Magruder; Alexander Tong 001; Oluwadamilola Fasina; Manik Kuchroo; Guy Wolf; Smita Krishnaswamy (NeurIPS, 2022)

Geodesic Sinkhorn: optimal transport for high-dimensional datasets. - Guillaume Huguet; Alexander Tong 001; María Ramos Zapatero; Guy Wolf; Smita Krishnaswamy (CoRR, 2022)

Neural FIM for learning Fisher information metrics from point cloud data. - Oluwadamilola Fasina; Guillaume Huguet; Alexander Tong 001; Yanlei Zhang; Guy Wolf; Maximilian Nickel; Ian Adelstein; Smita Krishnaswamy (ICML, 2023)

Geodesic Sinkhorn For Fast and Accurate Optimal Transport on Manifolds. - Guillaume Huguet; Alexander Tong 001; María Ramos Zapatero; Christopher J. Tape; Guy Wolf; Smita Krishnaswamy (MLSP, 2023)

A Heat Diffusion Perspective on Geodesic Preserving Dimensionality Reduction. - Guillaume Huguet; Alexander Tong 001; Edward De Brouwer; Yanlei Zhang; Guy Wolf; Ian Adelstein; Smita Krishnaswamy (NeurIPS, 2023)

Conditional Flow Matching: Simulation-Free Dynamic Optimal Transport. - Alexander Tong 001; Nikolay Malkin; Guillaume Huguet; Yanlei Zhang; Jarrid Rector-Brooks; Kilian Fatras; Guy Wolf; Yoshua Bengio (CoRR, 2023)

Graph Fourier MMD for Signals on Graphs. - Samuel Leone; Aarthi Venkat; Guillaume Huguet; Alexander Tong 001; Guy Wolf; Smita Krishnaswamy (CoRR, 2023)

Time-Inhomogeneous Diffusion Geometry and Topology. - Guillaume Huguet; Alexander Tong 001; Bastian Rieck; Jessie Huang; Manik Kuchroo; Matthew J. Hirn; Guy Wolf; Smita Krishnaswamy (SIAM J. Math. Data Sci., 2023)

Simulation-Free Schrödinger Bridges via Score and Flow Matching. - Alexander Tong 001; Nikolay Malkin; Kilian Fatras; Lazar Atanackovic; Yanlei Zhang; Guillaume Huguet; Guy Wolf; Yoshua Bengio (AISTATS, 2024)

Assessing Neural Network Representations During Training Using Noise-Resilient Diffusion Spectral Entropy. - Danqi Liao; Chen Liu 020; Benjamin W. Christensen; Alexander Tong 001; Guillaume Huguet; Guy Wolf; Maximilian Nickel; Ian Adelstein; Smita Krishnaswamy (CISS, 2024)

SE(3)-Stochastic Flow Matching for Protein Backbone Generation. - Avishek Joey Bose; Tara Akhound-Sadegh; Guillaume Huguet; Kilian Fatras; Jarrid Rector-Brooks; Cheng-Hao Liu; Andrei Cristian Nica; Maksym Korablyov; Michael M. Bronstein; Alexander Tong 001 (ICLR, 2024)

Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Generation. - Guillaume Huguet; James Vuckovic; Kilian Fatras; Eric Thibodeau-Laufer; Pablo Lemos; Riashat Islam; Cheng-Hao Liu; Jarrid Rector-Brooks; Tara Akhound-Sadegh; Michael M. Bronstein; Alexander Tong 001; Avishek Joey Bose (NeurIPS, 2024)

Sequence-Augmented SE(3)-Flow Matching For Conditional Protein Backbone Generation. - Guillaume Huguet; James Vuckovic; Kilian Fatras; Eric Thibodeau-Laufer; Pablo Lemos; Riashat Islam; Cheng-Hao Liu; Jarrid Rector-Brooks; Tara Akhound-Sadegh; Michael M. Bronstein; Alexander Tong 001; Avishek Joey Bose (CoRR, 2024)

ImageFlowNet: Forecasting Multiscale Trajectories of Disease Progression with Irregularly-Sampled Longitudinal Medical Images. - Chen Liu 020; Ke Xu 010; Liangbo L. Shen; Guillaume Huguet; Zilong Wang; Alexander Tong 001; Danilo Bzdok; Jay Stewart; Jay C. Wang; Luciano V. Del Priore; Smita Krishnaswamy (CoRR, 2024)

Geometry-Aware Generative Autoencoders for Warped Riemannian Metric Learning and Generative Modeling on Data Manifolds. - Xingzhi Sun 003; Danqi Liao; Kincaid MacDonald; Yanlei Zhang; Chen Liu 020; Guillaume Huguet; Guy Wolf; Ian Adelstein; Tim G. J. Rudner; Smita Krishnaswamy (CoRR, 2024)

Improving and generalizing flow-based generative models with minibatch optimal transport. - Alexander Tong 001; Kilian Fatras; Nikolay Malkin; Guillaume Huguet; Yanlei Zhang; Jarrid Rector-Brooks; Guy Wolf; Yoshua Bengio (Trans. Mach. Learn. Res., 2024)

Geometry-Aware Generative Autoencoders for Warped Riemannian Metric Learning and Generative Modeling on Data Manifolds. - Xingzhi Sun 003; Danqi Liao; Kincaid MacDonald; Yanlei Zhang; Guillaume Huguet; Guy Wolf; Ian Adelstein; Tim G. J. Rudner; Smita Krishnaswamy (AISTATS, 2025)

ImageFlowNet: Forecasting Multiscale Image-Level Trajectories of Disease Progression with Irregularly-Sampled Longitudinal Medical Images. - Chen Liu 020; Ke Xu 010; Liangbo L. Shen; Guillaume Huguet; Zilong Wang; Alexander Tong 001; Danilo Bzdok; Jay Stewart; Jay C. Wang; Luciano V. Del Priore; Smita Krishnaswamy (ICASSP, 2025)