arXiv subjects

Marco Cuturi

Publications and source records attributed to Marco Cuturi.

At least 55 records · Page 3Linked to original sources

arXiv2024

Progressive Entropic Optimal Transport Solvers

Optimal transport (OT) has profoundly impacted machine learning by providing theoretical and computational tools to realign datasets. In this context, given two large point clouds of sizes $n$ and $m$ in $\mathbb{R}^d$, entropic OT (EOT) solvers have emerged as the most reliable tool to either solve the Kantorovich problem and output a $n\times m$ coupling matrix, or to solve the Monge problem and learn a vector-valued push-forward map. While the robustness of EOT couplings/maps makes them a go-to choice in practical applications, EOT solvers remain difficult to tune because of a small but influential set of hyperparameters, notably the omnipresent entropic regularization strength $\varepsilon$. Setting $\varepsilon$ can be difficult, as it simultaneously impacts various performance metrics, such as compute speed, statistical performance, generalization, and bias. In this work, we propose a new class of EOT solvers (ProgOT), that can estimate both plans and transport maps. We take advantage of several opportunities to optimize the computation of EOT solutions by dividing mass displacement using a time discretization, borrowing inspiration from dynamic OT formulations, and conquering each of these steps using EOT with properly scheduled parameters. We provide experimental evidence demonstrating that ProgOT is a faster and more robust alternative to standard solvers when computing couplings at large scales, even outperforming neural network-based approaches. We also prove statistical consistency of our approach for estimating optimal transport maps.

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arXiv2024

Simple ReFlow: Improved Techniques for Fast Flow Models

Diffusion and flow-matching models achieve remarkable generative performance but at the cost of many sampling steps, this slows inference and limits applicability to time-critical tasks. The ReFlow procedure can accelerate sampling by straightening generation trajectories. However, ReFlow is an iterative procedure, typically requiring training on simulated data, and results in reduced sample quality. To mitigate sample deterioration, we examine the design space of ReFlow and highlight potential pitfalls in prior heuristic practices. We then propose seven improvements for training dynamics, learning and inference, which are verified with thorough ablation studies on CIFAR10 $32 \times 32$, AFHQv2 $64 \times 64$, and FFHQ $64 \times 64$. Combining all our techniques, we achieve state-of-the-art FID scores (without / with guidance, resp.) for fast generation via neural ODEs: $2.23$ / $1.98$ on CIFAR10, $2.30$ / $1.91$ on AFHQv2, $2.84$ / $2.67$ on FFHQ, and $3.49$ / $1.74$ on ImageNet-64, all with merely $9$ neural function evaluations.

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arXiv2024

Contrasting Multiple Representations with the Multi-Marginal Matching Gap

Learning meaningful representations of complex objects that can be seen through multiple ($k\geq 3$) views or modalities is a core task in machine learning. Existing methods use losses originally intended for paired views, and extend them to $k$ views, either by instantiating $\tfrac12k(k-1)$ loss-pairs, or by using reduced embeddings, following a \textit{one vs. average-of-rest} strategy. We propose the multi-marginal matching gap (M3G), a loss that borrows tools from multi-marginal optimal transport (MM-OT) theory to simultaneously incorporate all $k$ views. Given a batch of $n$ points, each seen as a $k$-tuple of views subsequently transformed into $k$ embeddings, our loss contrasts the cost of matching these $n$ ground-truth $k$-tuples with the MM-OT polymatching cost, which seeks $n$ optimally arranged $k$-tuples chosen within these $n\times k$ vectors. While the exponential complexity $O(n^k$) of the MM-OT problem may seem daunting, we show in experiments that a suitable generalization of the Sinkhorn algorithm for that problem can scale to, e.g., $k=3\sim 6$ views using mini-batches of size $64~\sim128$. Our experiments demonstrate improved performance over multiview extensions of pairwise losses, for both self-supervised and multimodal tasks.

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arXiv2024

Learning Elastic Costs to Shape Monge Displacements

Given a source and a target probability measure supported on $\mathbb{R}^d$, the Monge problem asks to find the most efficient way to map one distribution to the other. This efficiency is quantified by defining a \textit{cost} function between source and target data. Such a cost is often set by default in the machine learning literature to the squared-Euclidean distance, $\ell^2_2(\mathbf{x},\mathbf{y})=\tfrac12|\mathbf{x}-\mathbf{y}|_2^2$. Recently, Cuturi et. al '23 highlighted the benefits of using elastic costs, defined through a regularizer $τ$ as $c(\mathbf{x},\mathbf{y})=\ell^2_2(\mathbf{x},\mathbf{y})+τ(\mathbf{x}-\mathbf{y})$. Such costs shape the \textit{displacements} of Monge maps $T$, i.e., the difference between a source point and its image $T(\mathbf{x})-\mathbf{x})$, by giving them a structure that matches that of the proximal operator of $τ$. In this work, we make two important contributions to the study of elastic costs: (i) For any elastic cost, we propose a numerical method to compute Monge maps that are provably optimal. This provides a much-needed routine to create synthetic problems where the ground truth OT map is known, by analogy to the Brenier theorem, which states that the gradient of any convex potential is always a valid Monge map for the $\ell_2^2$ cost; (ii) We propose a loss to \textit{learn} the parameter $θ$ of a parameterized regularizer $τ_θ$, and apply it in the case where $τ_{A}(\mathbf{z})=|A^\perp \mathbf{z}|^2_2$. This regularizer promotes displacements that lie on a low dimensional subspace of $\mathbb{R}^d$, spanned by the $p$ rows of $A\in\mathbb{R}^{p\times d}$.

stat.ML↗

arXiv2024

A Specialized Semismooth Newton Method for Kernel-Based Optimal Transport

Kernel-based optimal transport (OT) estimators offer an alternative, functional estimation procedure to address OT problems from samples. Recent works suggest that these estimators are more statistically efficient than plug-in (linear programming-based) OT estimators when comparing probability measures in high-dimensions~\citep{Vacher-2021-Dimension}. Unfortunately, that statistical benefit comes at a very steep computational price: because their computation relies on the short-step interior-point method (SSIPM), which comes with a large iteration count in practice, these estimators quickly become intractable w.r.t. sample size $n$. To scale these estimators to larger $n$, we propose a nonsmooth fixed-point model for the kernel-based OT problem, and show that it can be efficiently solved via a specialized semismooth Newton (SSN) method: We show, exploring the problem's structure, that the per-iteration cost of performing one SSN step can be significantly reduced in practice. We prove that our SSN method achieves a global convergence rate of $O(1/\sqrt{k})$, and a local quadratic convergence rate under standard regularity conditions. We show substantial speedups over SSIPM on both synthetic and real datasets.

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arXiv2023

Structured Transforms Across Spaces with Cost-Regularized Optimal Transport

Matching a source to a target probability measure is often solved by instantiating a linear optimal transport (OT) problem, parameterized by a ground cost function that quantifies discrepancy between points. When these measures live in the same metric space, the ground cost often defaults to its distance. When instantiated across two different spaces, however, choosing that cost in the absence of aligned data is a conundrum. As a result, practitioners often resort to solving instead a quadratic Gromow-Wasserstein (GW) problem. We exploit in this work a parallel between GW and cost-regularized OT, the regularized minimization of a linear OT objective parameterized by a ground cost. We use this cost-regularized formulation to match measures across two different Euclidean spaces, where the cost is evaluated between transformed source points and target points. We show that several quadratic OT problems fall in this category, and consider enforcing structure in linear transform (e.g. sparsity), by introducing structure-inducing regularizers. We provide a proximal algorithm to extract such transforms from unaligned data, and demonstrate its applicability to single-cell spatial transcriptomics/multiomics matching tasks.

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arXiv2023

Unbalanced Low-rank Optimal Transport Solvers

The relevance of optimal transport methods to machine learning has long been hindered by two salient limitations. First, the $O(n^3)$ computational cost of standard sample-based solvers (when used on batches of $n$ samples) is prohibitive. Second, the mass conservation constraint makes OT solvers too rigid in practice: because they must match \textit{all} points from both measures, their output can be heavily influenced by outliers. A flurry of recent works in OT has addressed these computational and modelling limitations, but has resulted in two separate strains of methods: While the computational outlook was much improved by entropic regularization, more recent $O(n)$ linear-time \textit{low-rank} solvers hold the promise to scale up OT further. On the other hand, modelling rigidities have been eased owing to unbalanced variants of OT, that rely on penalization terms to promote, rather than impose, mass conservation. The goal of this paper is to merge these two strains, to achieve the promise of \textit{both} versatile/scalable unbalanced/low-rank OT solvers. We propose custom algorithms to implement these extensions for the linear OT problem and its Fused-Gromov-Wasserstein generalization, and demonstrate their practical relevance to challenging spatial transcriptomics matching problems.

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arXiv2023

Rethinking Initialization of the Sinkhorn Algorithm

While the optimal transport (OT) problem was originally formulated as a linear program, the addition of entropic regularization has proven beneficial both computationally and statistically, for many applications. The Sinkhorn fixed-point algorithm is the most popular approach to solve this regularized problem, and, as a result, multiple attempts have been made to reduce its runtime using, e.g., annealing in the regularization parameter, momentum or acceleration. The premise of this work is that initialization of the Sinkhorn algorithm has received comparatively little attention, possibly due to two preconceptions: since the regularized OT problem is convex, it may not be worth crafting a good initialization, since any is guaranteed to work; secondly, because the outputs of the Sinkhorn algorithm are often unrolled in end-to-end pipelines, a data-dependent initialization would bias Jacobian computations. We challenge this conventional wisdom, and show that data-dependent initializers result in dramatic speed-ups, with no effect on differentiability as long as implicit differentiation is used. Our initializations rely on closed-forms for exact or approximate OT solutions that are known in the 1D, Gaussian or GMM settings. They can be used with minimal tuning, and result in consistent speed-ups for a wide variety of OT problems.

stat.ML↗

arXiv2023

The Schrödinger Bridge between Gaussian Measures has a Closed Form

The static optimal transport $(\mathrm{OT})$ problem between Gaussians seeks to recover an optimal map, or more generally a coupling, to morph a Gaussian into another. It has been well studied and applied to a wide variety of tasks. Here we focus on the dynamic formulation of OT, also known as the Schrödinger bridge (SB) problem, which has recently seen a surge of interest in machine learning due to its connections with diffusion-based generative models. In contrast to the static setting, much less is known about the dynamic setting, even for Gaussian distributions. In this paper, we provide closed-form expressions for SBs between Gaussian measures. In contrast to the static Gaussian OT problem, which can be simply reduced to studying convex programs, our framework for solving SBs requires significantly more involved tools such as Riemannian geometry and generator theory. Notably, we establish that the solutions of SBs between Gaussian measures are themselves Gaussian processes with explicit mean and covariance kernels, and thus are readily amenable for many downstream applications such as generative modeling or interpolation. To demonstrate the utility, we devise a new method for modeling the evolution of single-cell genomics data and report significantly improved numerical stability compared to existing SB-based approaches.

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arXiv2023

Supervised Training of Conditional Monge Maps

Optimal transport (OT) theory describes general principles to define and select, among many possible choices, the most efficient way to map a probability measure onto another. That theory has been mostly used to estimate, given a pair of source and target probability measures $(μ, ν)$, a parameterized map $T_θ$ that can efficiently map $μ$ onto $ν$. In many applications, such as predicting cell responses to treatments, pairs of input/output data measures $(μ, ν)$ that define optimal transport problems do not arise in isolation but are associated with a context $c$, as for instance a treatment when comparing populations of untreated and treated cells. To account for that context in OT estimation, we introduce CondOT, a multi-task approach to estimate a family of OT maps conditioned on a context variable, using several pairs of measures $\left(μ_i, ν_i\right)$ tagged with a context label $c_i$. CondOT learns a global map $\mathcal{T}_θ$ conditioned on context that is not only expected to fit all labeled pairs in the dataset $\left\{\left(c_i,\left(μ_i, ν_i\right)\right)\right\}$, i.e., $\mathcal{T}_θ\left(c_i\right) \sharp μ_i \approx ν_i$, but should also generalize to produce meaningful maps $\mathcal{T}_θ\left(c_{\text {new }}\right)$ when conditioned on unseen contexts $c_{\text {new }}$. Our approach harnesses and provides a novel usage for partially input convex neural networks, for which we introduce a robust and efficient initialization strategy inspired by Gaussian approximations. We demonstrate the ability of CondOT to infer the effect of an arbitrary combination of genetic or therapeutic perturbations on single cells, using only observations of the effects of said perturbations separately.

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arXiv2023

The Monge Gap: A Regularizer to Learn All Transport Maps

Optimal transport (OT) theory has been been used in machine learning to study and characterize maps that can push-forward efficiently a probability measure onto another. Recent works have drawn inspiration from Brenier's theorem, which states that when the ground cost is the squared-Euclidean distance, the ``best'' map to morph a continuous measure in $\mathcal{P}(\Rd)$ into another must be the gradient of a convex function. To exploit that result, [Makkuva+ 2020, Korotin+2020] consider maps $T=\nabla f_θ$, where $f_θ$ is an input convex neural network (ICNN), as defined by Amos+2017, and fit $θ$ with SGD using samples. Despite their mathematical elegance, fitting OT maps with ICNNs raises many challenges, due notably to the many constraints imposed on $θ$; the need to approximate the conjugate of $f_θ$; or the limitation that they only work for the squared-Euclidean cost. More generally, we question the relevance of using Brenier's result, which only applies to densities, to constrain the architecture of candidate maps fitted on samples. Motivated by these limitations, we propose a radically different approach to estimating OT maps: Given a cost $c$ and a reference measure $ρ$, we introduce a regularizer, the Monge gap $\mathcal{M}^c_ρ(T)$ of a map $T$. That gap quantifies how far a map $T$ deviates from the ideal properties we expect from a $c$-OT map. In practice, we drop all architecture requirements for $T$ and simply minimize a distance (e.g., the Sinkhorn divergence) between $T\sharpμ$ and $ν$, regularized by $\mathcal{M}^c_ρ(T)$. We study $\mathcal{M}^c_ρ$, and show how our simple pipeline outperforms significantly other baselines in practice.

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arXiv2023

Monge, Bregman and Occam: Interpretable Optimal Transport in High-Dimensions with Feature-Sparse Maps

Optimal transport (OT) theory focuses, among all maps $T:\mathbb{R}^d\rightarrow \mathbb{R}^d$ that can morph a probability measure onto another, on those that are the ``thriftiest'', i.e. such that the averaged cost $c(x, T(x))$ between $x$ and its image $T(x)$ be as small as possible. Many computational approaches have been proposed to estimate such Monge maps when $c$ is the $\ell_2^2$ distance, e.g., using entropic maps [Pooladian'22], or neural networks [Makkuva'20, Korotin'20]. We propose a new model for transport maps, built on a family of translation invariant costs $c(x, y):=h(x-y)$, where $h:=\tfrac{1}{2}\|\cdot\|_2^2+τ$ and $τ$ is a regularizer. We propose a generalization of the entropic map suitable for $h$, and highlight a surprising link tying it with the Bregman centroids of the divergence $D_h$ generated by $h$, and the proximal operator of $τ$. We show that choosing a sparsity-inducing norm for $τ$ results in maps that apply Occam's razor to transport, in the sense that the displacement vectors $Δ(x):= T(x)-x$ they induce are sparse, with a sparsity pattern that varies depending on $x$. We showcase the ability of our method to estimate meaningful OT maps for high-dimensional single-cell transcription data, in the $34000$-$d$ space of gene counts for cells, without using dimensionality reduction, thus retaining the ability to interpret all displacements at the gene level.

stat.ML↗

arXiv2023

Linear-Time Gromov Wasserstein Distances using Low Rank Couplings and Costs

The ability to align points across two related yet incomparable point clouds (e.g. living in different spaces) plays an important role in machine learning. The Gromov-Wasserstein (GW) framework provides an increasingly popular answer to such problems, by seeking a low-distortion, geometry-preserving assignment between these points. As a non-convex, quadratic generalization of optimal transport (OT), GW is NP-hard. While practitioners often resort to solving GW approximately as a nested sequence of entropy-regularized OT problems, the cubic complexity (in the number $n$ of samples) of that approach is a roadblock. We show in this work how a recent variant of the OT problem that restricts the set of admissible couplings to those having a low-rank factorization is remarkably well suited to the resolution of GW: when applied to GW, we show that this approach is not only able to compute a stationary point of the GW problem in time $O(n^2)$, but also uniquely positioned to benefit from the knowledge that the initial cost matrices are low-rank, to yield a linear time $O(n)$ GW approximation. Our approach yields similar results, yet orders of magnitude faster computation than the SoTA entropic GW approaches, on both simulated and real data.

cs.LG↗

arXiv2023

Projection Robust Wasserstein Distance and Riemannian Optimization

Projection robust Wasserstein (PRW) distance, or Wasserstein projection pursuit (WPP), is a robust variant of the Wasserstein distance. Recent work suggests that this quantity is more robust than the standard Wasserstein distance, in particular when comparing probability measures in high-dimensions. However, it is ruled out for practical application because the optimization model is essentially non-convex and non-smooth which makes the computation intractable. Our contribution in this paper is to revisit the original motivation behind WPP/PRW, but take the hard route of showing that, despite its non-convexity and lack of nonsmoothness, and even despite some hardness results proved by~\citet{Niles-2019-Estimation} in a minimax sense, the original formulation for PRW/WPP \textit{can} be efficiently computed in practice using Riemannian optimization, yielding in relevant cases better behavior than its convex relaxation. More specifically, we provide three simple algorithms with solid theoretical guarantee on their complexity bound (one in the appendix), and demonstrate their effectiveness and efficiency by conducing extensive experiments on synthetic and real data. This paper provides a first step into a computational theory of the PRW distance and provides the links between optimal transport and Riemannian optimization.

cs.LG↗

arXiv2022

Efficient and Modular Implicit Differentiation

Automatic differentiation (autodiff) has revolutionized machine learning. It allows to express complex computations by composing elementary ones in creative ways and removes the burden of computing their derivatives by hand. More recently, differentiation of optimization problem solutions has attracted widespread attention with applications such as optimization layers, and in bi-level problems such as hyper-parameter optimization and meta-learning. However, so far, implicit differentiation remained difficult to use for practitioners, as it often required case-by-case tedious mathematical derivations and implementations. In this paper, we propose automatic implicit differentiation, an efficient and modular approach for implicit differentiation of optimization problems. In our approach, the user defines directly in Python a function $F$ capturing the optimality conditions of the problem to be differentiated. Once this is done, we leverage autodiff of $F$ and the implicit function theorem to automatically differentiate the optimization problem. Our approach thus combines the benefits of implicit differentiation and autodiff. It is efficient as it can be added on top of any state-of-the-art solver and modular as the optimality condition specification is decoupled from the implicit differentiation mechanism. We show that seemingly simple principles allow to recover many existing implicit differentiation methods and create new ones easily. We demonstrate the ease of formulating and solving bi-level optimization problems using our framework. We also showcase an application to the sensitivity analysis of molecular dynamics.

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arXiv2022

Low-rank Optimal Transport: Approximation, Statistics and Debiasing

The matching principles behind optimal transport (OT) play an increasingly important role in machine learning, a trend which can be observed when OT is used to disambiguate datasets in applications (e.g. single-cell genomics) or used to improve more complex methods (e.g. balanced attention in transformers or self-supervised learning). To scale to more challenging problems, there is a growing consensus that OT requires solvers that can operate on millions, not thousands, of points. The low-rank optimal transport (LOT) approach advocated in \cite{scetbon2021lowrank} holds several promises in that regard, and was shown to complement more established entropic regularization approaches, being able to insert itself in more complex pipelines, such as quadratic OT. LOT restricts the search for low-cost couplings to those that have a low-nonnegative rank, yielding linear time algorithms in cases of interest. However, these promises can only be fulfilled if the LOT approach is seen as a legitimate contender to entropic regularization when compared on properties of interest, where the scorecard typically includes theoretical properties (statistical complexity and relation to other methods) or practical aspects (debiasing, hyperparameter tuning, initialization). We target each of these areas in this paper in order to cement the impact of low-rank approaches in computational OT.

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arXiv2022

Debiaser Beware: Pitfalls of Centering Regularized Transport Maps

Estimating optimal transport (OT) maps (a.k.a. Monge maps) between two measures $P$ and $Q$ is a problem fraught with computational and statistical challenges. A promising approach lies in using the dual potential functions obtained when solving an entropy-regularized OT problem between samples $P_n$ and $Q_n$, which can be used to recover an approximately optimal map. The negentropy penalization in that scheme introduces, however, an estimation bias that grows with the regularization strength. A well-known remedy to debias such estimates, which has gained wide popularity among practitioners of regularized OT, is to center them, by subtracting auxiliary problems involving $P_n$ and itself, as well as $Q_n$ and itself. We do prove that, under favorable conditions on $P$ and $Q$, debiasing can yield better approximations to the Monge map. However, and perhaps surprisingly, we present a few cases in which debiasing is provably detrimental in a statistical sense, notably when the regularization strength is large or the number of samples is small. These claims are validated experimentally on synthetic and real datasets, and should reopen the debate on whether debiasing is needed when using entropic optimal transport.

math.OC↗

arXiv2022

Fixed-Support Wasserstein Barycenters: Computational Hardness and Fast Algorithm

We study the fixed-support Wasserstein barycenter problem (FS-WBP), which consists in computing the Wasserstein barycenter of $m$ discrete probability measures supported on a finite metric space of size $n$. We show first that the constraint matrix arising from the standard linear programming (LP) representation of the FS-WBP is \textit{not totally unimodular} when $m \geq 3$ and $n \geq 3$. This result resolves an open question pertaining to the relationship between the FS-WBP and the minimum-cost flow (MCF) problem since it proves that the FS-WBP in the standard LP form is not an MCF problem when $m \geq 3$ and $n \geq 3$. We also develop a provably fast \textit{deterministic} variant of the celebrated iterative Bregman projection (IBP) algorithm, named \textsc{FastIBP}, with a complexity bound of $\tilde{O}(mn^{7/3}\varepsilon^{-4/3})$, where $\varepsilon \in (0, 1)$ is the desired tolerance. This complexity bound is better than the best known complexity bound of $\tilde{O}(mn^2\varepsilon^{-2})$ for the IBP algorithm in terms of $\varepsilon$, and that of $\tilde{O}(mn^{5/2}\varepsilon^{-1})$ from accelerated alternating minimization algorithm or accelerated primal-dual adaptive gradient algorithm in terms of $n$. Finally, we conduct extensive experiments with both synthetic data and real images and demonstrate the favorable performance of the \textsc{FastIBP} algorithm in practice.

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