The paper introduces SUDO, a simulation‑free framework for unbalanced dynamic optimal transport (UDOT) that supports general convex growth penalties beyond the quadratic Wasserstein‑Fisher‑Rao case. By showing that concave penalties lead to degenerate solutions, the authors focus on convex penalties, learning conditional paths and transport costs to solve a semi‑coupling problem and then applying unbalanced flow matching. On benchmark datasets, SUDO matches the accuracy of analytical WFR solvers while being faster than simulation‑based methods, and it also handles asymmetric penalties that better reflect proliferation‑dominant biological priors.
arXiv:2605. 00545v2 Announce Type: replace-cross Abstract: Inferring cellular trajectories from destructive snapshots is complicated by the challenges of stochasticity and non-conservative mass dynamics such as cell proliferation and apoptosis.
arXiv:2607. 04738v1 Announce Type: cross Abstract: Reconstructing population dynamics is a central problem in the physical and data sciences.
Reconstructing population dynamics is a central problem in the physical and data sciences. Often, the dynamics are modeled as a Wasserstein gradient flow (WGF): a curve of distributions driven by an energy functional.
arXiv:2608. 15306v1 Announce Type: cross Abstract: High-throughput single-cell and spatial transcriptomic technologies provide high-resolution snapshots of heterogeneous cellular states, but their destructive nature prevents repeated measurements of the same cells over time.
arXiv:2606. 11286v1 Announce Type: cross Abstract: High-content imaging assays quantify cellular responses to chemical and genetic perturbations, yet continuous trajectories of individual cells are unobservable because cells are chemically fixed at acquisition.
arXiv:2607. 06583v1 Announce Type: cross Abstract: DNA methylation (DNAm) serves as one of the most robust molecular biomarkers of biological aging.
arXiv:2608.21070v1 Announce Type: cross Abstract: Inferring continuous system evolution from sparse temporal snapshots is a key challenge in generative modeling and single-cell omics. While Optimal T...
arXiv:2608. 00852v1 Announce Type: new Abstract: Understanding and controlling complex dynamical systems often requires executing thousands of numerical simulations across vast parametric landscapes, which is time-consuming.
arXiv:2602. 24201v2 Announce Type: replace Abstract: Estimating density ratios between pairs of intractable data distributions is a core problem in probabilistic modeling, enabling principled comparisons of sample likelihoods under different data-generating processes across conditions.
The paper introduces COFM, a framework for consistent optimal transport flow matching that uses partially input convex neural networks (PICNN) to parameterize the transport potential. By adding a Hamilton‑Jacobi residual to the training objective, COFM enforces dynamical consistency and supports both one‑step transport and multi‑step ODE sampling without costly inner optimization. Experiments on benchmark datasets show that COFM achieves competitive performance while reducing L^2‑UVP by over 2× and cutting computational time by about 9× compared to state‑of‑the‑art models.
arXiv:2606. 03820v1 Announce Type: cross Abstract: We develop a quantitative approximation framework for diffusion distillation, viewing few-step sampling as error propagation under compositions of learned flow maps.
arXiv:2608. 06283v1 Announce Type: new Abstract: We study the problem of sampling from target distributions whose potentials are simultaneously non-smooth, subject to superlinear gradient growth, and non-convex.