اشترك بالحزمة الذهبية واحصل على وصول غير محدود شمرا أكاديميا
تسجيل مستخدم جديدDiagnostics for Monte Carlo Algorithms for Models with Intractable Normalizing Functions
103
0
0.0
(
0
)
اسأل ChatGPT حول البحث
ﻻ يوجد ملخص باللغة العربية
Models with intractable normalizing functions have numerous applications ranging from network models to image analysis to spatial point processes. Because the normalizing constants are functions of the parameters of interest, standard Markov chain Monte Carlo cannot be used for Bayesian inference for these models. A number of algorithms have been developed for such models. Some have the posterior distribution as the asymptotic distribution. Other asymptotically inexact algorithms do not possess this property. There is limited guidance for evaluating approximations based on these algorithms, and hence it is very hard to tune them. We propose two new diagnostics that address these problems for intractable normalizing function models. Our first diagnostic, inspired by the second Bartlett identity, applies in principle to any asymptotically exact or inexact algorithm. We develop an approximate version of this new diagnostic that is applicable to intractable normalizing function problems. Our second diagnostic is a Monte Carlo approximation to a kernel Stein discrepancy-based diagnostic introduced by Gorham and Mackey (2017). We provide theoretical justification for our methods. We apply our diagnostics to several algorithms in the context of challenging simulated and real data examples, including an Ising model, an exponential random graph model, and a Markov point process.
قيم البحث
اقرأ أيضاً
Markov chain Monte Carlo (MCMC) is widely used for Bayesian inference in models of complex systems. Performance, however, is often unsatisfactory in models with many latent variables due to so-called poor mixing, necessitating development of applicat
ion specific implementations. This paper introduces posterior-based proposals (PBPs), a new type of MCMC update applicable to a huge class of statistical models (whose conditional dependence structures are represented by directed acyclic graphs). PBPs generates large joint updates in parameter and latent variable space, whilst retaining good acceptance rates (typically 33%). Evaluation against other approaches (from standard Gibbs / random walk updates to state-of-the-art Hamiltonian and particle MCMC methods) was carried out for widely varying model types: an individual-based model for disease diagnostic test data, a financial stochastic volatility model, a mixed model used in statistical genetics and a population model used in ecology. Whilst different methods worked better or worse in different scenarios, PBPs were found to be either near to the fastest or significantly faster than the next best approach (by up to a factor of 10). PBPs therefore represent an additional general purpose technique that can be usefully applied in a wide variety of contexts.
Sequential Monte Carlo (SMC), also known as particle filters, has been widely accepted as a powerful computational tool for making inference with dynamical systems. A key step in SMC is resampling, which plays the role of steering the algorithm towar
ds the future dynamics. Several strategies have been proposed and used in practice, including multinomial resampling, residual resampling (Liu and Chen 1998), optimal resampling (Fearnhead and Clifford 2003), stratified resampling (Kitagawa 1996), and optimal transport resampling (Reich 2013). We show that, in the one dimensional case, optimal transport resampling is equivalent to stratified resampling on the sorted particles, and they both minimize the resampling variance as well as the expected squared energy distance between the original and resampled empirical distributions; in the multidimensional case, the variance of stratified resampling after sorting particles using Hilbert curve (Gerber et al. 2019) in $mathbb{R}^d$ is $O(m^{-(1+2/d)})$, an improved rate compared to the original $O(m^{-(1+1/d)})$, where $m$ is the number of resampled particles. This improved rate is the lowest for ordered stratified resampling schemes, as conjectured in Gerber et al. (2019). We also present an almost sure bound on the Wasserstein distance between the original and Hilbert-curve-resampled empirical distributions. In light of these theoretical results, we propose the stratified multiple-descendant growth (SMG) algorithm, which allows us to explore the sample space more efficiently compared to the standard i.i.d. multiple-descendant sampling-resampling approach as measured by the Wasserstein metric. Numerical evidence is provided to demonstrate the effectiveness of our proposed method.
The challenges posed by complex stochastic models used in computational ecology, biology and genetics have stimulated the development of approximate approaches to statistical inference. Here we focus on Synthetic Likelihood (SL), a procedure that red
uces the observed and simulated data to a set of summary statistics, and quantifies the discrepancy between them through a synthetic likelihood function. SL requires little tuning, but it relies on the approximate normality of the summary statistics. We relax this assumption by proposing a novel, more flexible, density estimator: the Extended Empirical Saddlepoint approximation. In addition to proving the consistency of SL, under either the new or the Gaussian density estimator, we illustrate the method using two examples. One of these is a complex individual-based forest model for which SL offers one of the few practical possibilities for statistical inference. The examples show that the new density estimator is able to capture large departures from normality, while being scalable to high dimensions, and this in turn leads to more accurate parameter estimates, relative to the Gaussian alternative. The new density estimator is implemented by the esaddle R package, which can be found on the Comprehensive R Archive Network (CRAN).
The vast majority of models for the spread of communicable diseases are parametric in nature and involve underlying assumptions about how the disease spreads through a population. In this article we consider the use of Bayesian nonparametric approach
es to analysing data from disease outbreaks. Specifically we focus on methods for estimating the infection process in simple models under the assumption that this process has an explicit time-dependence.
We develop clustering procedures for longitudinal trajectories based on a continuous-time hidden Markov model (CTHMM) and a generalized linear observation model. Specifically in this paper, we carry out finite and infinite mixture model-based cluster
ing for a CTHMM and achieve inference using Markov chain Monte Carlo (MCMC). For a finite mixture model with prior on the number of components, we implement reversible-jump MCMC to facilitate the trans-dimensional move between different number of clusters. For a Dirichlet process mixture model, we utilize restricted Gibbs sampling split-merge proposals to expedite the MCMC algorithm. We employ proposed algorithms to the simulated data as well as a real data example, and the results demonstrate the desired performance of the new sampler.
سجل دخول لتتمكن من نشر تعليقات
التعليقات
جاري جلب التعليقات
سجل دخول لتتمكن من متابعة معايير البحث التي قمت باختيارها
