activity
20132026
most citedWhat is a meaningful representation of protein sequences?

188 citations · 367 across the 31 of their papers we have counts for

collaborators

35 papers

stat.ME2026

Beyond Laplace: Closed-form wrapped Gaussian posterior approximations on statistical manifolds

Marcelo Hartmann, Luu Hoang Phuc Hau, Anton Mallasto +5

In Bayesian statistics, the Laplace approximation provides a computationally efficient approximation to posterior distributions. However, its Gaussian form restricts it to elliptic…

cs.CV2023★ 1 cited

Variational Autoencoding of Dental Point Clouds

Johan Ziruo Ye, Thomas Ørkild, Peter Lempel Søndergaard +1

Digital dentistry has made significant advancements, yet numerous challenges remain. This paper introduces the FDI 16 dataset, an extensive collection of tooth meshes and point clo…

stat.ML2023

Riemannian Laplace approximations for Bayesian neural networks

Federico Bergamin, Pablo Moreno-Muñoz, Søren Hauberg +1

Bayesian neural networks often approximate the weight-posterior with a Gaussian distribution. However, practical posteriors are often, even locally, highly non-Gaussian, and empiri…

cs.LG2022

Identifying latent distances with Finslerian geometry

Alison Pouplin, David Eklund, Carl Henrik Ek +1

Riemannian geometry provides us with powerful tools to explore the latent space of generative models while preserving the underlying structure of the data. The latent space can be…

cs.CG2022

ICLR 2022 Challenge for Computational Geometry and Topology: Design and Results

Adele Myers, Saiteja Utpala, Shubham Talbar +25

This paper presents the computational challenge on differential geometry and topology that was hosted within the ICLR 2022 workshop ``Geometric and Topological Representation Learn…

cs.LG2022

Is an encoder within reach?

Helene Hauschultz, Rasmus Berg Palm. Pablo Moreno-Muños, Nicki Skafte Detlefsen +2

The encoder network of an autoencoder is an approximation of the nearest point projection onto the manifold spanned by the decoder. A concern with this approximation is that, while…

cs.LG2022★ 2 cited

Mario Plays on a Manifold: Generating Functional Content in Latent Space through Differential Geometry

Miguel González-Duque, Rasmus Berg Palm, Søren Hauberg +1

Deep generative models can automatically create content of diverse types. However, there are no guarantees that such content will satisfy the criteria necessary to present it to en…

cs.LG2022★ 1 cited

Visualizing Riemannian data with Rie-SNE

Andri Bergsson, Søren Hauberg

Faithful visualizations of data residing on manifolds must take the underlying geometry into account when producing a flat planar view of the data. In this paper, we extend the cla…

stat.ML2022★ 2 cited

Model-agnostic out-of-distribution detection using combined statistical tests

Federico Bergamin, Pierre-Alexandre Mattei, Jakob D. Havtorn +5

We present simple methods for out-of-distribution detection using a trained generative model. These techniques, based on classical statistical tests, are model-agnostic in the sens…

cs.RO2022

Reactive Motion Generation on Learned Riemannian Manifolds

Hadi Beik-Mohammadi, Søren Hauberg, Georgios Arvanitidis +2

In recent decades, advancements in motion learning have enabled robots to acquire new skills and adapt to unseen conditions in both structured and unstructured environments. In pra…

eess.AS2022

Benchmarking Generative Latent Variable Models for Speech

Jakob D. Havtorn, Lasse Borgholt, Søren Hauberg +2

Stochastic latent variable models (LVMs) achieve state-of-the-art performance on natural image generation but are still inferior to deterministic models on speech. In this paper, w…

cs.LG2022

Adaptive Cholesky Gaussian Processes

Simon Bartels, Kristoffer Stensbo-Smidt, Pablo Moreno-Muñoz +3

We present a method to approximate Gaussian process regression models for large datasets by considering only a subset of the data. Our approach is novel in that the size of the sub…

cs.LG2022★ 2 cited

Robust uncertainty estimates with out-of-distribution pseudo-inputs training

Pierre Segonne, Yevgen Zainchkovskyy, Søren Hauberg

Probabilistic models often use neural networks to control their predictive uncertainty. However, when making out-of-distribution (OOD)} predictions, the often-uncontrollable extrap…

cs.LG2021★ 5 cited

Bounds all around: training energy-based models with bidirectional bounds

Cong Geng, Jia Wang, Zhiyong Gao +2

Energy-based models (EBMs) provide an elegant framework for density estimation, but they are notoriously difficult to train. Recent work has established links to generative adversa…

cs.RO2021

Learning Riemannian Manifolds for Geodesic Motion Skills

Hadi Beik-Mohammadi, Søren Hauberg, Georgios Arvanitidis +2

For robots to work alongside humans and perform in unstructured environments, they must learn new motion skills and adapt them to unseen situations on the fly. This demands learnin…

cs.LG2021

Pulling back information geometry

Georgios Arvanitidis, Miguel González-Duque, Alison Pouplin +2

Latent space geometry has shown itself to provide a rich and rigorous framework for interacting with the latent variables of deep generative models. The existing theory, however, r…

cs.LG2021

Density estimation on smooth manifolds with normalizing flows

Dimitris Kalatzis, Johan Ziruo Ye, Alison Pouplin +2

We present a framework for learning probability distributions on topologically non-trivial manifolds, utilizing normalizing flows. Current methods focus on manifolds that are homeo…

cs.LG2021★ 8 cited

Hierarchical VAEs Know What They Don't Know

Jakob D. Havtorn, Jes Frellsen, Søren Hauberg +1

Deep generative models have been demonstrated as state-of-the-art density estimators. Yet, recent work has found that they often assign a higher likelihood to data from outside the…

q-bio.BM2020★ 188 cited

What is a meaningful representation of protein sequences?

Nicki Skafte Detlefsen, Søren Hauberg, Wouter Boomsma

How we choose to represent our data has a fundamental impact on our ability to subsequently extract information from them. Machine learning promises to automatically determine effi…

stat.ML2020★ 1 cited

Reparametrization Invariance in non-parametric Causal Discovery

Martin Jørgensen, Søren Hauberg

Causal discovery estimates the underlying physical process that generates the observed data: does X cause Y or does Y cause X? Current methodologies use structural conditions to tu…

stat.ML2020★ 2 cited

Geometrically Enriched Latent Spaces

Georgios Arvanitidis, Søren Hauberg, Bernhard Schölkopf

A common assumption in generative models is that the generator immerses the latent space into a Euclidean ambient space. Instead, we consider the ambient space to be a Riemannian m…

stat.ML2020★ 3 cited

Isometric Gaussian Process Latent Variable Model for Dissimilarity Data

Martin Jørgensen, Søren Hauberg

We present a probabilistic model where the latent variable respects both the distances and the topology of the modeled data. The model leverages the Riemannian geometry of the gene…

cs.LG2020★ 9 cited

Variational Autoencoders with Riemannian Brownian Motion Priors

Dimitris Kalatzis, David Eklund, Georgios Arvanitidis +1

Variational Autoencoders (VAEs) represent the given data in a low-dimensional latent space, which is generally assumed to be Euclidean. This assumption naturally leads to the commo…

cs.LG2019★ 9 cited

Expected path length on random manifolds

David Eklund, Søren Hauberg

Manifold learning seeks a low dimensional representation that faithfully captures the essence of data. Current methods can successfully learn such representations, but do not provi…