Pairwise Optimal Transports for Training All-to-All Flow-Based Condition Transfer Model

In this paper, we propose a flow-based method for learning all-to-all transfer maps among conditional distributions that approximates pairwise optimal transport. The proposed method addresses the challenge of handling the case of continuous conditions, which often involve a large set of conditions with sparse empirical observations per condition. We introduce a novel cost function that enables simultaneous learning of optimal transports for all pairs of conditional distributions. Our method is supported by a theoretical guarantee that, in the limit, it converges to the pairwise optimal transports among infinite pairs of conditional distributions. The learned transport maps are subsequently used to couple data points in conditional flow matching. We demonstrate the effectiveness of this method on synthetic and benchmark datasets, as well as on chemical datasets in which continuous physical properties are defined as conditions. The code for this project can be found at https://github.com/kotatumuri-room/A2A-FM * This work was partially done while Kotaro was an intern in Preferred Networks.

39th Conference on Neural Information Processing Systems (NeurIPS 2025).