Search Results for author: Jan-Willem van de Meent

Found 48 papers, 18 papers with code

VISA: Variational Inference with Sequential Sample-Average Approximations

no code implementations14 Mar 2024 Heiko Zimmermann, Christian A. Naesseth, Jan-Willem van de Meent

We present variational inference with sequential sample-average approximation (VISA), a method for approximate inference in computationally intensive models, such as those based on numerical simulations.

valid Variational Inference

Towards Reducing Diagnostic Errors with Interpretable Risk Prediction

no code implementations15 Feb 2024 Denis Jered McInerney, William Dickinson, Lucy C. Flynn, Andrea C. Young, Geoffrey S. Young, Jan-Willem van de Meent, Byron C. Wallace

In this work we propose a method to use LLMs to identify pieces of evidence in patient EHR data that indicate increased or decreased risk of specific diagnoses; our ultimate aim is to increase access to evidence and reduce diagnostic errors.

Topological Obstructions and How to Avoid Them

no code implementations NeurIPS 2023 Babak Esmaeili, Robin Walters, Heiko Zimmermann, Jan-Willem van de Meent

Incorporating geometric inductive biases into models can aid interpretability and generalization, but encoding to a specific geometric structure can be challenging due to the imposed topological constraints.

String Diagrams with Factorized Densities

no code implementations4 May 2023 Eli Sennesh, Jan-Willem van de Meent

A growing body of research on probabilistic programs and causal models has highlighted the need to reason compositionally about model classes that extend directed graphical models.

Causal Inference Probabilistic Programming

CHiLL: Zero-shot Custom Interpretable Feature Extraction from Clinical Notes with Large Language Models

no code implementations23 Feb 2023 Denis Jered McInerney, Geoffrey Young, Jan-Willem van de Meent, Byron C. Wallace

We propose CHiLL (Crafting High-Level Latents), an approach for natural-language specification of features for linear models.

Verified Reversible Programming for Verified Lossless Compression

1 code implementation2 Nov 2022 James Townsend, Jan-Willem van de Meent

Agda supports formal verification of program properties, and the compiler for our reversible language (which is implemented as an Agda macro), produces not just an encoder/decoder pair of functions but also a proof that they are inverse to one another.

A Variational Perspective on Generative Flow Networks

no code implementations14 Oct 2022 Heiko Zimmermann, Fredrik Lindsten, Jan-Willem van de Meent, Christian A. Naesseth

Generative flow networks (GFNs) are a class of models for sequential sampling of composite objects, which approximate a target distribution that is defined in terms of an energy function or a reward.

Variational Inference

That's the Wrong Lung! Evaluating and Improving the Interpretability of Unsupervised Multimodal Encoders for Medical Data

no code implementations12 Oct 2022 Denis Jered McInerney, Geoffrey Young, Jan-Willem van de Meent, Byron C. Wallace

We compare alignments from a state-of-the-art multimodal (image and text) model for EHR with human annotations that link image regions to sentences.

Deriving time-averaged active inference from control principles

no code implementations22 Aug 2022 Eli Sennesh, Jordan Theriault, Jan-Willem van de Meent, Lisa Feldman Barrett, Karen Quigley

Active inference offers a principled account of behavior as minimizing average sensory surprise over time.

Binding Actions to Objects in World Models

1 code implementation27 Apr 2022 Ondrej Biza, Robert Platt, Jan-Willem van de Meent, Lawson L. S. Wong, Thomas Kipf

We study the problem of binding actions to objects in object-factored world models using action-attention mechanisms.

Hard Attention Object

Factored World Models for Zero-Shot Generalization in Robotic Manipulation

1 code implementation10 Feb 2022 Ondrej Biza, Thomas Kipf, David Klee, Robert Platt, Jan-Willem van de Meent, Lawson L. S. Wong

In this paper, we learn to generalize over robotic pick-and-place tasks using object-factored world models, which combat the combinatorial explosion by ensuring that predictions are equivariant to permutations of objects.

Object Zero-shot Generalization

Beyond Simple Meta-Learning: Multi-Purpose Models for Multi-Domain, Active and Continual Few-Shot Learning

2 code implementations13 Jan 2022 Peyman Bateni, Jarred Barber, Raghav Goyal, Vaden Masrani, Jan-Willem van de Meent, Leonid Sigal, Frank Wood

The first method, Simple CNAPS, employs a hierarchically regularized Mahalanobis-distance based classifier combined with a state of the art neural adaptive feature extractor to achieve strong performance on Meta-Dataset, mini-ImageNet and tiered-ImageNet benchmarks.

Active Learning continual few-shot learning +3

Learning Symmetric Representations for Equivariant World Models

no code implementations29 Sep 2021 Jung Yeon Park, Ondrej Biza, Linfeng Zhao, Jan-Willem van de Meent, Robin Walters

In this paper, we use equivariant transition models as an inductive bias to learn symmetric latent representations in a self-supervised manner.

Inductive Bias

Conjugate Energy-Based Models

no code implementations ICLR Workshop EBM 2021 Hao Wu, Babak Esmaeili, Michael Wick, Jean-Baptiste Tristan, Jan-Willem van de Meent

In this paper, we propose conjugate energy-based models (CEBMs), a new class of energy-based models that define a joint density over data and latent variables.

Nested Variational Inference

no code implementations NeurIPS 2021 Heiko Zimmermann, Hao Wu, Babak Esmaeili, Jan-Willem van de Meent

We develop nested variational inference (NVI), a family of methods that learn proposals for nested importance samplers by minimizing an forward or reverse KL divergence at each level of nesting.

Variational Inference

Disentangling Representations of Text by Masking Transformers

no code implementations EMNLP 2021 Xiongyi Zhang, Jan-Willem van de Meent, Byron C. Wallace

Representations from large pretrained models such as BERT encode a range of features into monolithic vectors, affording strong predictive accuracy across a multitude of downstream tasks.

Disentanglement

On the Impact of Random Seeds on the Fairness of Clinical Classifiers

no code implementations NAACL 2021 Silvio Amir, Jan-Willem van de Meent, Byron C. Wallace

Recent work has shown that fine-tuning large networks is surprisingly sensitive to changes in random seed(s).

Fairness

Learning Proposals for Probabilistic Programs with Inference Combinators

1 code implementation1 Mar 2021 Sam Stites, Heiko Zimmermann, Hao Wu, Eli Sennesh, Jan-Willem van de Meent

Proposals in these samplers can be parameterized using neural networks, which in turn can be trained by optimizing variational objectives.

Generator Surgery for Compressed Sensing

no code implementations22 Feb 2021 Niklas Smedemark-Margulies, Jung Yeon Park, Max Daniels, Rose Yu, Jan-Willem van de Meent, Paul Hand

We introduce a method for achieving low representation error using generators as signal priors.

Action Priors for Large Action Spaces in Robotics

1 code implementation11 Jan 2021 Ondrej Biza, Dian Wang, Robert Platt, Jan-Willem van de Meent, Lawson L. S. Wong

This paper proposes an alternative approach where the solutions of previously solved tasks are used to produce an action prior that can facilitate exploration in future tasks.

reinforcement-learning Reinforcement Learning (RL) +2

Improving Few-Shot Visual Classification with Unlabelled Examples

2 code implementations28 Sep 2020 Peyman Bateni, Jarred Barber, Jan-Willem van de Meent, Frank Wood

We propose a transductive meta-learning method that uses unlabelled instances to improve few-shot image classification performance.

Classification Clustering +2

Enhancing Few-Shot Image Classification with Unlabelled Examples

2 code implementations17 Jun 2020 Peyman Bateni, Jarred Barber, Jan-Willem van de Meent, Frank Wood

We develop a transductive meta-learning method that uses unlabelled instances to improve few-shot image classification performance.

Classification Clustering +4

Query-Focused EHR Summarization to Aid Imaging Diagnosis

no code implementations9 Apr 2020 Denis Jered McInerney, Borna Dabiri, Anne-Sophie Touret, Geoffrey Young, Jan-Willem van de Meent, Byron C. Wallace

We propose and evaluate models that extract relevant text snippets from patient records to provide a rough case summary intended to aid physicians considering one or more diagnoses.

Extractive Summarization

Deep Markov Spatio-Temporal Factorization

1 code implementation22 Mar 2020 Amirreza Farnoosh, Behnaz Rezaei, Eli Zachary Sennesh, Zulqarnain Khan, Jennifer Dy, Ajay Satpute, J. Benjamin Hutchinson, Jan-Willem van de Meent, Sarah Ostadabbas

This results in a flexible family of hierarchical deep generative factor analysis models that can be extended to perform time series clustering or perform factor analysis in the presence of a control signal.

Clustering Time Series +3

Rate-Regularization and Generalization in VAEs

no code implementations11 Nov 2019 Alican Bozkurt, Babak Esmaeili, Jean-Baptiste Tristan, Dana H. Brooks, Jennifer G. Dy, Jan-Willem van de Meent

Variational autoencoders optimize an objective that combines a reconstruction loss (the distortion) and a KL term (the rate).

Inductive Bias

Amortized Population Gibbs Samplers with Neural Sufficient Statistics

1 code implementation ICML 2020 Hao Wu, Heiko Zimmermann, Eli Sennesh, Tuan Anh Le, Jan-Willem van de Meent

We develop amortized population Gibbs (APG) samplers, a class of scalable methods that frames structured variational inference as adaptive importance sampling.

Variational Inference

Can VAEs Generate Novel Examples?

1 code implementation22 Dec 2018 Alican Bozkurt, Babak Esmaeili, Dana H. Brooks, Jennifer G. Dy, Jan-Willem van de Meent

This leads to the hypothesis that, for a sufficiently high capacity encoder and decoder, the VAE decoder will perform nearest-neighbor matching according to the coordinates in the latent space.

Structured Neural Topic Models for Reviews

no code implementations12 Dec 2018 Babak Esmaeili, Hongyi Huang, Byron C. Wallace, Jan-Willem van de Meent

We present Variational Aspect-based Latent Topic Allocation (VALTA), a family of autoencoding topic models that learn aspect-based representations of reviews.

Sentence Topic Models

Nested Reasoning About Autonomous Agents Using Probabilistic Programs

no code implementations4 Dec 2018 Iris Rubi Seaman, Jan-Willem van de Meent, David Wingate

As autonomous agents become more ubiquitous, they will eventually have to reason about the plans of other agents, which is known as theory of mind reasoning.

Probabilistic Programming

Composing Modeling and Inference Operations with Probabilistic Program Combinators

no code implementations14 Nov 2018 Eli Sennesh, Adam Ścibior, Hao Wu, Jan-Willem van de Meent

We assume that models are dynamic, but that model composition is static, in the sense that combinator application takes place prior to evaluating the model on data.

On Exploration, Exploitation and Learning in Adaptive Importance Sampling

no code implementations31 Oct 2018 Xiaoyu Lu, Tom Rainforth, Yuan Zhou, Jan-Willem van de Meent, Yee Whye Teh

We study adaptive importance sampling (AIS) as an online learning problem and argue for the importance of the trade-off between exploration and exploitation in this adaptation.

An Introduction to Probabilistic Programming

3 code implementations27 Sep 2018 Jan-Willem van de Meent, Brooks Paige, Hongseok Yang, Frank Wood

We start with a discussion of model-based reasoning and explain why conditioning is a foundational computation central to the fields of probabilistic machine learning and artificial intelligence.

Probabilistic Programming

Inference Trees: Adaptive Inference with Exploration

no code implementations25 Jun 2018 Tom Rainforth, Yuan Zhou, Xiaoyu Lu, Yee Whye Teh, Frank Wood, Hongseok Yang, Jan-Willem van de Meent

We introduce inference trees (ITs), a new class of inference methods that build on ideas from Monte Carlo tree search to perform adaptive sampling in a manner that balances exploration with exploitation, ensures consistency, and alleviates pathologies in existing adaptive methods.

Learning Disentangled Representations of Texts with Application to Biomedical Abstracts

1 code implementation EMNLP 2018 Sarthak Jain, Edward Banner, Jan-Willem van de Meent, Iain J. Marshall, Byron C. Wallace

We propose a method for learning disentangled representations of texts that code for distinct and complementary aspects, with the aim of affording efficient model transfer and interpretability.

Retrieval

Bayesian Optimization for Probabilistic Programs

2 code implementations NeurIPS 2016 Tom Rainforth, Tuan Anh Le, Jan-Willem van de Meent, Michael A. Osborne, Frank Wood

We present the first general purpose framework for marginal maximum a posteriori estimation of probabilistic program variables.

Bayesian Optimization

Learning Disentangled Representations with Semi-Supervised Deep Generative Models

1 code implementation NeurIPS 2017 N. Siddharth, Brooks Paige, Jan-Willem van de Meent, Alban Desmaison, Noah D. Goodman, Pushmeet Kohli, Frank Wood, Philip H. S. Torr

We propose to learn such representations using model architectures that generalise from standard VAEs, employing a general graphical model structure in the encoder and decoder.

Representation Learning

Inducing Interpretable Representations with Variational Autoencoders

no code implementations22 Nov 2016 N. Siddharth, Brooks Paige, Alban Desmaison, Jan-Willem van de Meent, Frank Wood, Noah D. Goodman, Pushmeet Kohli, Philip H. S. Torr

We develop a framework for incorporating structured graphical models in the \emph{encoders} of variational autoencoders (VAEs) that allows us to induce interpretable representations through approximate variational inference.

General Classification Variational Inference

Probabilistic structure discovery in time series data

no code implementations21 Nov 2016 David Janz, Brooks Paige, Tom Rainforth, Jan-Willem van de Meent, Frank Wood

Existing methods for structure discovery in time series data construct interpretable, compositional kernels for Gaussian process regression models.

regression Time Series +1

Interacting Particle Markov Chain Monte Carlo

1 code implementation16 Feb 2016 Tom Rainforth, Christian A. Naesseth, Fredrik Lindsten, Brooks Paige, Jan-Willem van de Meent, Arnaud Doucet, Frank Wood

We introduce interacting particle Markov chain Monte Carlo (iPMCMC), a PMCMC method based on an interacting pool of standard and conditional sequential Monte Carlo samplers.

Black-Box Policy Search with Probabilistic Programs

1 code implementation16 Jul 2015 Jan-Willem van de Meent, Brooks Paige, David Tolpin, Frank Wood

In this work, we explore how probabilistic programs can be used to represent policies in sequential decision problems.

Particle Gibbs with Ancestor Sampling for Probabilistic Programs

no code implementations27 Jan 2015 Jan-Willem van de Meent, Hongseok Yang, Vikash Mansinghka, Frank Wood

Particle Markov chain Monte Carlo techniques rank among current state-of-the-art methods for probabilistic program inference.

Probabilistic Programming

Tempering by Subsampling

no code implementations28 Jan 2014 Jan-Willem van de Meent, Brooks Paige, Frank Wood

In this paper we demonstrate that tempering Markov chain Monte Carlo samplers for Bayesian models by recursively subsampling observations without replacement can improve the performance of baseline samplers in terms of effective sample size per computation.

Stylistic Clusters and the Syrian/South Syrian Tradition of First-Millennium BCE Levantine Ivory Carving: A Machine Learning Approach

no code implementations5 Jan 2014 Amy Rebecca Gansell, Jan-Willem van de Meent, Sakellarios Zairis, Chris H. Wiggins

Thousands of first-millennium BCE ivory carvings have been excavated from Neo-Assyrian sites in Mesopotamia (primarily Nimrud, Khorsabad, and Arslan Tash) hundreds of miles from their Levantine production contexts.

BIG-bench Machine Learning Descriptive +1

Hierarchically-coupled hidden Markov models for learning kinetic rates from single-molecule data

no code implementations15 May 2013 Jan-Willem van de Meent, Jonathan E. Bronson, Frank Wood, Ruben L. Gonzalez Jr., Chris H. Wiggins

We address the problem of analyzing sets of noisy time-varying signals that all report on the same process but confound straightforward analyses due to complex inter-signal heterogeneities and measurement artifacts.

Time Series Time Series Analysis

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