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Bayesian phylogenetic inference is currently done via Markov chain Monte Carlo (MCMC) with simple proposal mechanisms. This hinders exploration efficiency and often requires long runs to deliver accurate posterior estimates. In this paper,…

Machine Learning · Statistics 2024-05-24 Cheng Zhang , Frederick A. Matsen

Markov Chain Monte Carlo (MCMC) sampling is computationally expensive, especially for complex models. Alternative methods make simplifying assumptions about the posterior to reduce computational burden, but their impact on predictive…

Computation · Statistics 2025-10-27 Florian D. van Leeuwen , Sara van Erp

Miller and Reif's FOCS'85 classic and fundamental tree contraction algorithm is a broadly applicable technique for the parallel solution of a large number of tree problems. Additionally it is also used as an algorithmic design technique for…

Data Structures and Algorithms · Computer Science 2021-11-04 MohammadTaghi Hajiaghayi , Marina Knittel , Hamed Saleh , Hsin-Hao Su

Recent advances in reasoning models have demonstrated significant improvements in accuracy by employing detailed and comprehensive reasoning processes. However, generating these lengthy reasoning sequences is computationally expensive and…

Computation and Language · Computer Science 2025-08-27 Yijiong Yu

Efficient sampling of many-dimensional and multimodal density functions is a task of great interest in many research fields. We describe an algorithm that allows parallelizing inherently serial Markov chain Monte Carlo (MCMC) sampling by…

Computation · Statistics 2020-08-10 Vasyl Hafych , Philipp Eller , Oliver Schulz , Allen Caldwell

In this paper, we study a parallel version of Galton-Watson processes for the random generation of tree-shaped structures. Random trees are useful in many situations (testing, binary search, simulation of physics phenomena,...) as attests…

Distributed, Parallel, and Cluster Computing · Computer Science 2016-06-22 Olivier Bodini , Camille Coti , Julien David

The whole computer hardware industry embraced multicores. For these machines, the extreme optimisation of sequential algorithms is no longer sufficient to squeeze the real machine power, which can be only exploited via thread-level…

Distributed, Parallel, and Cluster Computing · Computer Science 2010-09-21 Marco aldinucci , Salvatore Ruggieri , Massimo Torquati

We propose a sequential Markov chain Monte Carlo (SMCMC) algorithm to sample from a sequence of probability distributions, corresponding to posterior distributions at different times in on-line applications. SMCMC proceeds as in usual MCMC…

Statistics Theory · Mathematics 2013-08-20 Yun Yang , David B. Dunson

An increasing number of applications are exploiting sampling-based algorithms for planning, optimization, and inference. The Markov Chain Monte Carlo (MCMC) algorithms form the computational backbone of this emerging branch of machine…

Machine Learning · Computer Science 2025-07-18 Shirui Zhao , Jun Yin , Lingyun Yao , Martin Andraud , Wannes Meert , Marian Verhelst

We present a novel Bayesian inference tool that uses a neural network to parameterise efficient Markov Chain Monte-Carlo (MCMC) proposals. The target distribution is first transformed into a diagonal, unit variance Gaussian by a series of…

Cosmology and Nongalactic Astrophysics · Physics 2020-06-03 Adam Moss

Markov Chain Monte Carlo (MCMC) algorithms are commonly used for their versatility in sampling from complicated probability distributions. However, as the dimension of the distribution gets larger, the computational costs for a satisfactory…

Cosmology and Nongalactic Astrophysics · Physics 2020-12-01 Hector J. Hortua , Riccardo Volpi , Dimitri Marinelli , Luigi Malago

Dynamic tree data structures maintain a forest while supporting insertion and deletion of edges and a broad set of queries in $O(\log n)$ time per operation. Such data structures are at the core of many modern algorithms. Recent work has…

Data Structures and Algorithms · Computer Science 2025-06-23 Humza Ikram , Andrew Brady , Daniel Anderson , Guy Blelloch

Single-chain Markov chain Monte Carlo simulates realizations from a Markov chain to estimate expectations with the empirical average. The single-chain simulation is generally of considerable length and restricts many advantages of modern…

Statistics Theory · Mathematics 2024-02-01 Austin Brown

Tree-based models have proven to be an effective solution for web ranking as well as other problems in diverse domains. This paper focuses on optimizing the runtime performance of applying such models to make predictions, given an…

Databases · Computer Science 2013-04-29 Nima Asadi , Jimmy Lin , Arjen P. de Vries

This paper considers a new approach to using Markov chain Monte Carlo (MCMC) in contexts where one may adopt multilevel (ML) Monte Carlo. The underlying problem is to approximate expectations w.r.t. an underlying probability measure that is…

Numerical Analysis · Mathematics 2018-06-27 Ajay Jasra , Kody Law , Yaxian Xu

Markov chain Monte Carlo (MCMC) algorithms provide a very general recipe for estimating properties of complicated distributions. While their use has become commonplace and there is a large literature on MCMC theory and practice, MCMC users…

Computation · Statistics 2012-05-03 Murali Haran , Luke Tierney

In this study, we explore the efficiency of the Monte Carlo Tree Search (MCTS), a prominent decision-making algorithm renowned for its effectiveness in complex decision environments, contingent upon the volume of simulations conducted.…

Artificial Intelligence · Computer Science 2024-03-19 Ye Zhang , Mengran Zhu , Kailin Gui , Jiayue Yu , Yong Hao , Haozhan Sun

In many situations it is important to be able to propose $N$ independent realizations of a given distribution law. We propose a strategy for making $N$ parallel Monte Carlo Markov Chains (MCMC) interact in order to get an approximation of…

Probability · Mathematics 2007-05-23 Fabien Campillo , Vivien Rossi

Markov Chain Monte Carlo (MCMC) methods such as Gibbs sampling are finding widespread use in applied statistics and machine learning. These often lead to difficult computational problems, which are increasingly being solved on parallel and…

Machine Learning · Statistics 2018-06-05 Alexander Terenin , Eric P. Xing

Deep Neural Network guided Monte-Carlo Tree Search (DNN-MCTS) is a powerful class of AI algorithms. In DNN-MCTS, a Deep Neural Network model is trained collaboratively with a dynamic Monte-Carlo search tree to guide the agent towards…

Performance · Computer Science 2023-10-10 Yuan Meng , Qian Wang , Tianxin Zu , Viktor Prasanna