Wiley Interdisciplinary Reviews-Computational Statistics最新文献_第3页

On the safe use of prior densities for Bayesian model selection 贝叶斯模型选择中先验密度的安全使用

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-06-10 DOI: 10.1002/wics.1595

F. Llorente, Luca Martino, E. Curbelo, J. Lopez-Santiago, D. Delgado

{"title":"On the safe use of prior densities for Bayesian model selection","authors":"F. Llorente, Luca Martino, E. Curbelo, J. Lopez-Santiago, D. Delgado","doi":"10.1002/wics.1595","DOIUrl":"https://doi.org/10.1002/wics.1595","url":null,"abstract":"The application of Bayesian inference for the purpose of model selection is very popular nowadays. In this framework, models are compared through their marginal likelihoods, or their quotients, called Bayes factors. However, marginal likelihoods depend on the prior choice. For model selection, even diffuse priors can be actually very informative, unlike for the parameter estimation problem. Furthermore, when the prior is improper, the marginal likelihood of the corresponding model is undetermined. In this work, we discuss the issue of prior sensitivity of the marginal likelihood and its role in model selection. We also comment on the use of uninformative priors, which are very common choices in practice. Several practical suggestions are discussed and many possible solutions, proposed in the literature, to design objective priors for model selection are described. Some of them also allow the use of improper priors. The connection between the marginal likelihood approach and the well‐known information criteria is also presented. We describe the main issues and possible solutions by illustrative numerical examples, providing also some related code. One of them involving a real‐world application on exoplanet detection.","PeriodicalId":47779,"journal":{"name":"Wiley Interdisciplinary Reviews-Computational Statistics","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2022-06-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"44402673","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 6

Document clustering 文档聚类

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-06-08 DOI: 10.1002/wics.1588

Irene Cozzolino, M. Ferraro

引用次数: 0

A review of normalization and differential abundance methods for microbiome counts data 微生物组计数数据的归一化和差分丰度方法综述

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-05-18 DOI: 10.1002/wics.1586

Dionne Swift, Kellen Cresswell, Robert Johnson, Spiro C. Stilianoudakis, Xingtao Wei

{"title":"A review of normalization and differential abundance methods for microbiome counts data","authors":"Dionne Swift, Kellen Cresswell, Robert Johnson, Spiro C. Stilianoudakis, Xingtao Wei","doi":"10.1002/wics.1586","DOIUrl":"https://doi.org/10.1002/wics.1586","url":null,"abstract":"The recent development of cost‐effective high‐throughput DNA sequencing technologies has tremendously increased microbiome research. However, it has been well documented that the observed microbiome data suffers from compositionality, sparsity, and high variability. All of which pose serious challenges when analyzing microbiome data. Over the last decade, there has been considerable amount of interest into statistical and computational methods to tackle these challenges. The choice of inference aids in the selection of the appropriate statistical methods since only a few methods allow inferences for absolute abundance while most methods allow inferences for relative abundances. An overview of recent methods for differential abundance analysis and normalization of microbiome data is presented, focusing on methods that are accessible but have not been widely covered in previous literature. In detailed descriptions of each method, we discuss assumptions and if and how these methods address the challenges of microbiome data. These methods are compared based on accuracy metrics in real and simulated settings. The goal is to provide a comprehensive but non‐exhaustive set of potential and easily‐accessible tools for differential abundance and normalization of microbiome data.","PeriodicalId":47779,"journal":{"name":"Wiley Interdisciplinary Reviews-Computational Statistics","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2022-05-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45693764","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 9

Projection‐based techniques for high‐dimensional optimal transport problems 高维最优运输问题的基于投影的技术

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-05-13 DOI: 10.1002/wics.1587

Jingyi Zhang, Ping Ma, Wenxuan Zhong, Cheng Meng

引用次数: 11

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IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-05-01 DOI: 10.1002/wics.1562

引用次数: 0

Integrative clustering methods for multi-omics data. 多组学数据的集成聚类方法。

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-05-01 DOI: 10.1002/wics.1553

Xiaoyu Zhang, Zhenwei Zhou, Hanfei Xu, Ching-Ti Liu

{"title":"Integrative clustering methods for multi-omics data.","authors":"Xiaoyu Zhang, Zhenwei Zhou, Hanfei Xu, Ching-Ti Liu","doi":"10.1002/wics.1553","DOIUrl":"https://doi.org/10.1002/wics.1553","url":null,"abstract":"Integrative analysis of multi-omics data has drawn much attention from the scientific community due to the technological advancements which have generated various omics data. Leveraging these multi-omics data potentially provides a more comprehensive view of the disease mechanism or biological processes. Integrative multi-omics clustering is an unsupervised integrative method specifically used to find coherent groups of samples or features by utilizing information across multi-omics data. It aims to better stratify diseases and to suggest biological mechanisms and potential targeted therapies for the diseases. However, applying integrative multi-omics clustering is both statistically and computationally challenging due to various reasons such as high dimensionality and heterogeneity. In this review, we summarized integrative multi-omics clustering methods into three general categories: concatenated clustering, clustering of clusters, and interactive clustering based on when and how the multi-omics data are processed for clustering. We further classified the methods into different approaches under each category based on the main statistical strategy used during clustering. In addition, we have provided recommended practices tailored to four real-life scenarios to help researchers to strategize their selection in integrative multi-omics clustering methods for their future studies.","PeriodicalId":47779,"journal":{"name":"Wiley Interdisciplinary Reviews-Computational Statistics","volume":"14 3","pages":""},"PeriodicalIF":3.2,"publicationDate":"2022-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1002/wics.1553","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9379724","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 4

Statistical inference for stochastic differential equations 随机微分方程的统计推断

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-04-27 DOI: 10.1002/wics.1585

P. Craigmile, Radu Herbei, Geoffrey Liu, Grant Schneider

{"title":"Statistical inference for stochastic differential equations","authors":"P. Craigmile, Radu Herbei, Geoffrey Liu, Grant Schneider","doi":"10.1002/wics.1585","DOIUrl":"https://doi.org/10.1002/wics.1585","url":null,"abstract":"Many scientific fields have experienced growth in the use of stochastic differential equations (SDEs), also known as diffusion processes, to model scientific phenomena over time. SDEs can simultaneously capture the known deterministic dynamics of underlying variables of interest (e.g., ocean flow, chemical and physical characteristics of a body of water, presence, absence, and spread of a disease), while enabling a modeler to capture the unknown random dynamics in a stochastic setting. We focus on reviewing a wide range of statistical inference methods for likelihood‐based frequentist and Bayesian parametric inference based on discretely‐sampled diffusions. Exact parametric inference is not usually possible because the transition density is not available in closed form. Thus, we review the literature on approximate numerical methods (e.g., Euler, Milstein, local linearization, and Aït‐Sahalia) and simulation‐based approaches (e.g., data augmentation and exact sampling) that are used to carry out parametric statistical inference on SDE processes. We close with a brief discussion of other methods of inference for SDEs and more complex SDE processes such as spatio‐temporal SDEs.","PeriodicalId":47779,"journal":{"name":"Wiley Interdisciplinary Reviews-Computational Statistics","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2022-04-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"47620930","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"数学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 6

Function minimization and nonlinear least squares in R 函数最小化与R中的非线性最小二乘

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-03-24 DOI: 10.1002/wics.1580

J. Nash

引用次数: 0

Echelon analysis and its software for spatial lattice data 空间格点数据的梯队分析及其软件

IF 3.2 2区数学

Wiley Interdisciplinary Reviews-Computational Statistics Pub Date : 2022-03-12 DOI: 10.1002/wics.1579

K. Kurihara, Fumio Ishioka

引用次数: 0

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