Hugo Lavenant

Hugo Lavenant, Giacomo Zanella

Recently proposed generative models for discrete data, such as Masked Diffusion Models (MDMs), exploit conditional independence approximations to reduce the computational cost of popular Auto-Regressive Models (ARMs), at the price of some bias in the sampling distribution. We study the resulting computation-vs-accuracy trade-off, providing general error bounds (in relative entropy) that depend only on the average number of tokens generated per iteration and are independent of the data dimensionality (i.e. sequence length), thus supporting the empirical success of MDMs. We then investigate the gain obtained by using non-constant schedule sizes (i.e. varying the number of unmasked tokens during the generation process) and identify the optimal schedule as a function of a so-called information profile of the data distribution, thus allowing for a principled optimization of schedule sizes. We define methods directly as sampling algorithms and do not use classical derivations as time-reversed diffusion processes, leading us to simple and transparent proofs.

Hugo Lavenant, Stephen Zhang, Young-Heon Kim et al.

We devise a theoretical framework and a numerical method to infer trajectories of a stochastic process from samples of its temporal marginals. This problem arises in the analysis of single cell RNA-sequencing data, which provide high dimensional measurements of cell states but cannot track the trajectories of the cells over time. We prove that for a class of stochastic processes it is possible to recover the ground truth trajectories from limited samples of the temporal marginals at each time-point, and provide an efficient algorithm to do so in practice. The method we develop, Global Waddington-OT (gWOT), boils down to a smooth convex optimization problem posed globally over all time-points involving entropy-regularized optimal transport. We demonstrate that this problem can be solved efficiently in practice and yields good reconstructions, as we show on several synthetic and real datasets.