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Register a new userA Trainable Optimal Transport Embedding for Feature Aggregation and its Relationship to Attention
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We address the problem of learning on sets of features, motivated by the need of performing pooling operations in long biological sequences of varying sizes, with long-range dependencies, and possibly few labeled data. To address this challenging task, we introduce a parametrized representation of fixed size, which embeds and then aggregates elements from a given input set according to the optimal transport plan between the set and a trainable reference. Our approach scales to large datasets and allows end-to-end training of the reference, while also providing a simple unsupervised learning mechanism with small computational cost. Our aggregation technique admits two useful interpretations: it may be seen as a mechanism related to attention layers in neural networks, or it may be seen as a scalable surrogate of a classical optimal transport-based kernel. We experimentally demonstrate the effectiveness of our approach on biological sequences, achieving state-of-the-art results for protein fold recognition and detection of chromatin profiles tasks, and, as a proof of concept, we show promising results for processing natural language sequences. We provide an open-source implementation of our embedding that can be used alone or as a module in larger learning models at https://github.com/claying/OTK.
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The objective in statistical Optimal Transport (OT) is to consistently estimate the optimal transport plan/map solely using samples from the given source and target marginal distributions. This work takes the novel approach of posing statistical OT as that of learning the transport plans kernel mean embedding from sample based estimates of marginal embeddings. The proposed estimator controls overfitting by employing maximum mean discrepancy based regularization, which is complementary to $phi$-divergence (entropy) based regularization popularly employed in existing estimators. A key result is that, under very mild conditions, $epsilon$-optimal recovery of the transport plan as well as the Barycentric-projection based transport map is possible with a sample complexity that is completely dimension-free. Moreover, the implicit smoothing in the kernel mean embeddings enables out-of-sample estimation. An appropriate representer theorem is proved leading to a kernelized convex formulation for the estimator, which can then be potentially used to perform OT even in non-standard domains. Empirical results illustrate the efficacy of the proposed approach.
Inverse optimal transport (OT) refers to the problem of learning the cost function for OT from observed transport plan or its samples. In this paper, we derive an unconstrained convex optimization formulation of the inverse OT problem, which can be further augmented by any customizable regularization. We provide a comprehensive characterization of the properties of inverse OT, including uniqueness of solutions. We also develop two numerical algorithms, one is a fast matrix scaling method based on the Sinkhorn-Knopp algorithm for discrete OT, and the other one is a learning based algorithm that parameterizes the cost function as a deep neural network for continuous OT. The novel framework proposed in the work avoids repeatedly solving a forward OT in each iteration which has been a thorny computational bottleneck for the bi-level optimization in existing inverse OT approaches. Numerical results demonstrate promising efficiency and accuracy advantages of the proposed algorithms over existing state-of-the-art methods.
We address the problem of unsupervised domain adaptation under the setting of generalized target shift (joint class-conditional and label shifts). For this framework, we theoretically show that, for good generalization, it is necessary to learn a latent representation in which both marginals and class-conditional distributions are aligned across domains. For this sake, we propose a learning problem that minimizes importance weighted loss in the source domain and a Wasserstein distance between weighted marginals. For a proper weighting, we provide an estimator of target label proportion by blending mixture estimation and optimal matching by optimal transport. This estimation comes with theoretical guarantees of correctness under mild assumptions. Our experimental results show that our method performs better on average than competitors across a range domain adaptation problems including emph{digits},emph{VisDA} and emph{Office}. Code for this paper is available at url{https://github.com/arakotom/mars_domain_adaptation}.
Detecting communities on graphs has received significant interest in recent literature. Current state-of-the-art community embedding approach called textit{ComE} tackles this problem by coupling graph embedding with community detection. Considering the success of hyperbolic representations of graph-structured data in last years, an ongoing challenge is to set up a hyperbolic approach for the community detection problem. The present paper meets this challenge by introducing a Riemannian equivalent of textit{ComE}. Our proposed approach combines hyperbolic embeddings with Riemannian K-means or Riemannian mixture models to perform community detection. We illustrate the usefulness of this framework through several experiments on real-world social networks and comparisons with textit{ComE} and recent hyperbolic-based classification approaches.
Constituting highly informative network embeddings is an important tool for network analysis. It encodes network topology, along with other useful side information, into low-dimensional node-based feature representations that can be exploited by statistical modeling. This work focuses on learning context-aware network embeddings augmented with text data. We reformulate the network-embedding problem, and present two novel strategies to improve over traditional attention mechanisms: ($i$) a content-aware sparse attention module based on optimal transport, and ($ii$) a high-level attention parsing module. Our approach yields naturally sparse and self-normalized relational inference. It can capture long-term interactions between sequences, thus addressing the challenges faced by existing textual network embedding schemes. Extensive experiments are conducted to demonstrate our model can consistently outperform alternative state-of-the-art methods.
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