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Many random processes can be simulated as the output of a deterministic model accepting random inputs. Such a model usually describes a complex mathematical or physical stochastic system and the randomness is introduced in the input…

Machine Learning · Statistics 2012-11-21 A. Gokcen Mahmutoglu , Alper T. Erdogan , Alper Demir

Correlation among the observations in high-dimensional regression modeling can be a major source of confounding. We present a new open-source package, plmmr, to implement penalized linear mixed models in R. This R package estimates…

Computation · Statistics 2026-05-13 Tabitha K. Peter , Anna C. Reisetter , Yujing Lu , Oscar A. Rysavy , Patrick J. Breheny

Statistical signal processing applications usually require the estimation of some parameters of interest given a set of observed data. These estimates are typically obtained either by solving a multi-variate optimization problem, as in the…

Computation · Statistics 2021-07-27 D. Luengo , L. Martino , M. Bugallo , V. Elvira , S. Särkkä

The present article explores the application of randomized control techniques in empirical asset pricing and performance evaluation. It introduces geometric random walks, a class of Markov chain Monte Carlo methods, to construct flexible…

Portfolio Management · Quantitative Finance 2024-03-04 Cyril Bachelard , Apostolos Chalkis , Vissarion Fisikopoulos , Elias Tsigaridas

We describe the \proglang{R} package \pkg{glmmrBase} and an extension \pkg{glmmrOptim}. \pkg{glmmrBase} provides a flexible approach to specifying, fitting, and analysing generalised linear mixed models. We use an object-orientated class…

Computation · Statistics 2024-03-15 Samuel I. Watson

The prediction interval is gaining prominence in meta-analysis as it enables the assessment of uncertainties in treatment effects and heterogeneity between studies. However, coverage probabilities of the current standard method for…

Methodology · Statistics 2021-10-18 Kengo Nagashima , Hisashi Noma , Toshi A. Furukawa

There are many different ways in which change point analysis can be performed, from purely parametric methods to those that are distribution free. The ecp package is designed to perform multiple change point analysis while making as few…

Computation · Statistics 2013-11-26 Nicholas A. James , David S. Matteson

Markov processes are popular mathematical models, studied by theoreticians for their intriguing properties, and applied by practitioners for their flexible structure. With this book we teach how to model and analyze Markov processes. We…

Probability · Mathematics 2017-09-27 Ivo Adan , Johan van Leeuwaarden , Jori Selen

Inference for partially observed Markov process models has been a longstanding methodological challenge with many scientific and engineering applications. Iterated filtering algorithms maximize the likelihood function for partially observed…

Statistics Theory · Mathematics 2012-11-26 Edward L. Ionides , Anindya Bhadra , Yves Atchadé , Aaron King

In the practical industry, the most commonly used application of statistical analysis for monitoring the process mean is the control chart. Control charts are generated based on the presumption that we have a sample from a stable process.…

Optimization and Control · Mathematics 2025-10-07 Fahad Rafique , Saadia Masood , Shabbir Ahmad , Sadaf Amin

At the scale of the individual cell, protein production is a stochastic process with multiple time scales, combining quick and slow random steps with discontinuous and smooth variation. Hybrid stochastic processes, in particular…

Molecular Networks · Quantitative Biology 2019-05-02 Guilherme C. P. Innocentini , Fernando Antoneli , Arran Hodgkinson , Ovidiu Radulescu

This paper describes and illustrates functionality of the spNNGP R package. The package provides a suite of spatial regression models for Gaussian and non-Gaussian point-referenced outcomes that are spatially indexed. The package implements…

Computation · Statistics 2021-04-16 Andrew O. Finley , Abhirup Datta , Sudipto Banerjee

A software package has been developed to bridge the R analysis model with the conceptual analysis environment typical of radiation physics experiments. The new package has been used in the context of a project for the validation of…

Computational Physics · Physics 2013-11-25 Andreas Pfeiffer , Maria Grazia Pia

The performance of optimization algorithms relies crucially on their parameterizations. Finding good parameter settings is called algorithm tuning. The sequential parameter optimization (SPOT) package for R is a toolbox for tuning and…

Mathematical Software · Computer Science 2021-03-05 Thomas Bartz-Beielstein , Martin Zaefferer , Frederik Rehbach

This contribution presents a guide to the R package multilevLCA, which offers a complete and innovative set of technical tools for the latent class analysis of single-level and multilevel categorical data. We describe the available model…

Computation · Statistics 2024-04-11 Johan Lyrvall , Roberto Di Mari , Zsuzsa Bakk , Jennifer Oser , Jouni Kuha

Integrating multiple observational studies for meta-analysis has sparked much interest. The presented R package WMAP (Weighted Meta-Analysis with Pseudo-Population) addresses a critical gap in the implementation of integrative weighting…

Methodology · Statistics 2025-07-01 Subharup Guha , Mengqi Xu , Kashish Priyam , Yi Li

This paper describes and illustrates the functionality of the baker R package. The package estimates a suite of nested partially-latent class models (NPLCM) for multivariate binary responses that are observed under a case-control design.…

Methodology · Statistics 2022-02-25 Irena B Chen , Qiyuan Shi , Scott L Zeger , Zhenke Wu

A number of numeric approaches to simulate Poisson point processes with arbitrary event rates are presented and implemented for R. They include the simulation of the number of points and their location as well as the determination of…

Probability · Mathematics 2019-05-21 Niklas Hohmann

PoPPy is a Point Process toolbox based on PyTorch, which achieves flexible designing and efficient learning of point process models. It can be used for interpretable sequential data modeling and analysis, e.g., Granger causality analysis of…

Machine Learning · Computer Science 2019-10-14 Hongteng Xu

Mediation analysis is one of the most widely used statistical techniques in the social, behavioral, and medical sciences. Mediation models allow to study how an independent variable affects a dependent variable indirectly through one or…

Computation · Statistics 2022-08-18 Andreas Alfons , Nüfer Y. Ateş , Patrick J. F. Groenen