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Motivation: The mapping of RNA-seq reads to their transcripts of origin is a fundamental task in transcript expression estimation and differential expression scoring. Where ambiguities in mapping exist due to transcripts sharing sequence,…

Genomics · Quantitative Biology 2015-01-28 James Hensman , Peter Glaus , Antti Honkela , Magnus Rattray

We present an approximate inference method, based on a synergistic combination of R\'enyi $\alpha$-divergence variational inference (RDVI) and rejection sampling (RS). RDVI is based on minimization of R\'enyi $\alpha$-divergence…

Machine Learning · Computer Science 2019-10-30 Rahul Sharma , Abhishek Kumar , Piyush Rai

Inference and inverse problems are closely related concepts, both fundamentally involving the deduction of unknown causes or parameters from observed data. Bayesian inference, a powerful class of methods, is often employed to solve a…

Machine Learning · Statistics 2024-09-17 Yuan-Hao Wei , Yan-Jie Sun , Chen Zhang

This paper introduces the $f$-divergence variational inference ($f$-VI) that generalizes variational inference to all $f$-divergences. Initiated from minimizing a crafty surrogate $f$-divergence that shares the statistical consistency with…

Machine Learning · Computer Science 2021-04-06 Neng Wan , Dapeng Li , Naira Hovakimyan

We study the problem of invariant learning when the environment labels are unknown. We focus on the invariant representation notion when the Bayes optimal conditional label distribution is the same across different environments. Previous…

Machine Learning · Computer Science 2022-08-09 Aayush Mishra , Anqi Liu

Understanding visual inputs for a given task amidst varied changes is a key challenge posed by visual reinforcement learning agents. We propose \textit{Value Explicit Pretraining} (VEP), a method that learns generalizable representations…

Machine Learning · Computer Science 2026-05-04 Kiran Lekkala , Henghui Bao , Sumedh A. Sontakke , Erdem Biyik , Laurent Itti

Undirected graphical models are applied in genomics, protein structure prediction, and neuroscience to identify sparse interactions that underlie discrete data. Although Bayesian methods for inference would be favorable in these contexts,…

Machine Learning · Statistics 2017-06-15 John Ingraham , Debora Marks

Variational autoencoder (VAE) is a deep generative model for unsupervised learning, allowing to encode observations into the meaningful latent space. VAE is prone to catastrophic forgetting when tasks arrive sequentially, and only the data…

Machine Learning · Computer Science 2021-11-04 Anna Kuzina , Evgenii Egorov , Evgeny Burnaev

Each training step for a variational autoencoder (VAE) requires us to sample from the approximate posterior, so we usually choose simple (e.g. factorised) approximate posteriors in which sampling is an efficient computation that fully…

Machine Learning · Statistics 2018-05-29 Laurence Aitchison , Vincent Adam , Srinivas C. Turaga

Long-context autoregressive decoding remains expensive because each decoding step must repeatedly process a growing history. We observe a consistent pattern during decoding: within a sentence, and more generally within a short semantically…

Machine Learning · Computer Science 2026-03-13 Xingyu Xie , Zhaochen Yu , Yue Liao , Tao Wang , Kim-Chuan Toh , Shuicheng Yan

Variational Bayesian (VB) methods produce posterior inference in a time frame considerably smaller than traditional Markov Chain Monte Carlo approaches. Although the VB posterior is an approximation, it has been shown to produce good…

Computation · Statistics 2019-08-02 Nathaniel Tomasetti , Catherine S. Forbes , Anastasios Panagiotelis

Gaussian Processes (GPs) provide a flexible and statistically principled foundation for modelling spatiotemporal phenomena, but their $O(N^3)$ scaling makes them intractable for large datasets. Approximate methods such as variational…

Machine Learning · Statistics 2026-04-01 Jhonathan Navott , Daniel Jenson , Seth Flaxman , Elizaveta Semenova

In this paper, we introduce a novel, data-driven approach for solving high-dimensional Bayesian inverse problems based on partial differential equations (PDEs), called Weak Neural Variational Inference (WNVI). The method complements real…

Machine Learning · Statistics 2024-07-31 Vincent C. Scholz , Yaohua Zang , Phaedon-Stelios Koutsourelakis

Given observed data and a probabilistic generative model, Bayesian inference searches for the distribution of the model's parameters that could have yielded the data. Inference is challenging for large population studies where millions of…

Machine Learning · Statistics 2023-08-31 Louis Rouillard , Alexandre Le Bris , Thomas Moreau , Demian Wassermann

Statistical models are central to machine learning with broad applicability across a range of downstream tasks. The models are controlled by free parameters that are typically estimated from data by maximum-likelihood estimation or…

Machine Learning · Computer Science 2023-08-16 Vaidotas Simkus , Benjamin Rhodes , Michael U. Gutmann

Reinforcement learning (RL) post-training substantially improves remote sensing vision-language models (RS-VLMs). However, when handling complex remote sensing imagery (RSI) requiring exhaustive visual scanning, models tend to rely on…

Computer Vision and Pattern Recognition · Computer Science 2026-04-21 Gaozhi Zhou , Hu He , Peng Shen , Jipeng Zhang , Liujue Zhang , Linrui Xu , Zeyuan Wang , Ziyu Li , Xuezhi Cui , Wang Guo , Haifeng Li

Given the wide adoption of multimodal sensors (e.g., camera, lidar, radar) by autonomous vehicles (AVs), deep analytics to fuse their outputs for a robust perception become imperative. However, existing fusion methods often make two…

Computer Vision and Pattern Recognition · Computer Science 2024-11-22 Pengfei Hu , Yuhang Qian , Tianyue Zheng , Ang Li , Zhe Chen , Yue Gao , Xiuzhen Cheng , Jun Luo

Bayesian (deep) neural networks (BNN) are often more attractive than the vanilla point-estimate deep learning in various aspects including uncertainty quantification, robustness to noise, resistance to overfitting, and more. The variational…

Machine Learning · Computer Science 2026-05-22 Minyoung Kim

Gaussian processes (GPs) provide a framework for Bayesian inference that can offer principled uncertainty estimates for a large range of problems. For example, if we consider regression problems with Gaussian likelihoods, a GP model enjoys…

Machine Learning · Computer Science 2022-12-21 Felix Leibfried , Vincent Dutordoir , ST John , Nicolas Durrande

The recognition network in deep latent variable models such as variational autoencoders (VAEs) relies on amortized inference for efficient posterior approximation that can scale up to large datasets. However, this technique has also been…

Machine Learning · Statistics 2019-02-28 Rui Shu , Hung H. Bui , Jay Whang , Stefano Ermon
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