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Multivariate statistics are often available as well as necessary in hypothesis tests. We study how to use such statistics to control not only false discovery rate (FDR) but also positive FDR (pFDR) with good power. We show that FDR can be…

Statistics Theory · Mathematics 2008-05-21 Zhiyi Chi

Recently, Eklund et al. (2016) analyzed clustering methods in standard FMRI packages: AFNI (which we maintain), FSL, and SPM [1]. They claimed: 1) false positive rates (FPRs) in traditional approaches are greatly inflated, questioning the…

Quantitative Methods · Quantitative Biology 2022-06-08 Robert W. Cox , Gang Chen , Daniel R. Glen , Richard C. Reynolds , Paul A. Taylor

Multiple testing has been a popular topic in statistical research. Although vast works have been done, controlling the false discoveries remains a challenging task when the corresponding test statistics are dependent. Various methods have…

Statistics Theory · Mathematics 2022-07-05 Meng Mei , Tao Yu , Yuan Jiang

We propose a general and flexible procedure for testing multiple hypotheses about sequential (or streaming) data that simultaneously controls both the false discovery rate (FDR) and false nondiscovery rate (FNR) under minimal assumptions…

Methodology · Statistics 2019-01-14 Jay Bartroff , Jinlin Song

Genomic data are subject to various sources of confounding, such as demographic variables, biological heterogeneity, and batch effects. To identify genomic features associated with a variable of interest in the presence of confounders, the…

Methodology · Statistics 2025-12-08 Asmita Roy , Jun Chen , Xianyang Zhang

Many important tasks of large-scale recommender systems can be naturally cast as testing multiple linear forms for noisy matrix completion. These problems, however, present unique challenges because of the subtle bias-and-variance tradeoff…

Methodology · Statistics 2025-03-12 Wanteng Ma , Lilun Du , Dong Xia , Ming Yuan

The topological gap protocol (TGP) is a statistical test designed to identify a topological phase with high confidence and without human bias. It is used to determine a promising parameter regime for operating topological qubits. The…

Mesoscale and Nanoscale Physics · Physics 2025-04-21 Morteza Aghaee , Zulfi Alam , Mariusz Andrzejczuk , Andrey E. Antipov , Mikhail Astafev , Amin Barzegar , Bela Bauer , Jonathan Becker , Umesh Kumar Bhaskar , Alex Bocharov , Srini Boddapati , David Bohn , Jouri Bommer , Leo Bourdet , Samuel Boutin , Benjamin J. Chapman , Sohail Chatoor , Anna Wulff Christensen , Patrick Codd , William S. Cole , Paul Cooper , Fabiano Corsetti , Ajuan Cui , Andreas Ekefjärd , Saeed Fallahi , Luca Galletti , Geoff Gardner , Deshan Govender , Flavio Griggio , Ruben Grigoryan , Sebastian Grijalva , Sergei Gronin , Jan Gukelberger , Marzie Hamdast , Esben Bork Hansen , Sebastian Heedt , Samantha Ho , Laurens Holgaard , Kevin Van Hoogdalem , Jinnapat Indrapiromkul , Henrik Ingerslev , Lovro Ivancevic , Thomas Jensen , Jaspreet Jhoja , Jeffrey Jones , Konstantin V. Kalashnikov , Ray Kallaher , Rachpon Kalra , Farhad Karimi , Torsten Karzig , Maren Elisabeth Kloster , Christina Knapp , Jonne Koski , Pasi Kostamo , Tom Laeven , Gijs de Lange , Thorvald Larsen , Jason Lee , Kyunghoon Lee , Grant Leum , Kongyi Li , Tyler Lindemann , Matthew Looij , Marijn Lucas , Roman Lutchyn , Morten Hannibal Madsen , Nash Madulid , Michael Manfra , Signe Brynold Markussen , Esteban Martinez , Marco Mattila , Robert McNeil , Ryan V. Mishmash , Gopakumar Mohandas , Christian Mollgaard , Michiel de Moor , Trevor Morgan , George Moussa , Chetan Nayak , William Hvidtfelt Padkær Nielsen , Jens Hedegaard Nielsen , Mike Nystrom , Eoin O'Farrell , Keita Otani , Karl Petersson , Luca Petit , Dima Pikulin , Mohana Rajpalke , Alejandro Alcaraz Ramirez , Katrine Rasmussen , David Razmadze , Yuan Ren , Ken Reneris , Ivan A. Sadovskyy , Lauri Sainiemi , Juan Carlos Estrada Saldaña , Irene Sanlorenzo , Emma Schmidgall , Cristina Sfiligoj , Sarat Sinha , Thomas Soerensen , Patrick Sohr , Tomaš Stankevič , Lieuwe Stek , Eric Stuppard , Henri Suominen , Judith Suter , Sam Teicher , Nivetha Thiyagarajah , Raj Tholapi , Mason Thomas , Emily Toomey , Josh Tracy , Michelle Turley , Shivendra Upadhyay , Ivan Urban , Dmitrii V. Viazmitinov , Dominik Vogel , John Watson , Alex Webster , Joseph Weston , Georg W. Winkler , David J. Van Woerkom , Brian Paquelet Wütz , Chung Kai Yang , Emrah Yucelen , Jesús Herranz Zamorano , Roland Zeisel , Guoji Zheng , Justin Zilke

A cornerstone of the multiple testing literature is the Benjamini-Hochberg (BH) procedure, which guarantees control of the FDR when $p$-values are independent or positively dependent. While BH controls the average quality of rejections, it…

Methodology · Statistics 2026-03-31 Sarah Mostow , Daniel Xiang

Matrix-variate Gaussian graphical models (GGM) have been widely used for modeling matrix-variate data. Since the support of sparse precision matrix represents the conditional independence graph among matrix entries, conducting support…

Methodology · Statistics 2017-09-01 Xi Chen , Weidong Liu

We propose the use of a new false discovery rate (FDR) controlling procedure as a model selection penalized method, and compare its performance to that of other penalized methods over a wide range of realistic settings: nonorthogonal design…

Applications · Statistics 2009-05-19 Yoav Benjamini , Yulia Gavrilov

We develop the distribution of the number of hypotheses found to be statistically significant using the rule from Benjamini and Hochberg (1995) for controlling the false discovery rate (FDR). This distribution has both a small sample form…

Methodology · Statistics 2018-02-27 Chang Yu , Daniel Zelterman

False discovery rates (FDR) are an essential component of statistical inference, representing the propensity for an observed result to be mistaken. FDR estimates should accompany observed results to help the user contextualize the relevance…

Methodology · Statistics 2020-10-12 Megan Hollister Murray , Jeffrey D. Blume

Multiple hypothesis testing with false discovery rate (FDR) control is a fundamental problem in statistical inference, with broad applications in genomics, drug screening, and outlier detection. In many such settings, researchers may have…

Methodology · Statistics 2026-02-19 Yonghoon Lee , Meshi Bashari , Edgar Dobriban , Yaniv Romano

We apply multiple testing procedures to the validation of estimated default probabilities in credit rating systems. The goal is to identify rating classes for which the probability of default is estimated inaccurately, while still…

Applications · Statistics 2010-06-28 Sebastian Döhler

Motivation: In microarray analysis, special consideration must be given to the issues of multiple statistical tests and typically p-values are adjusted to control family-wise error rate (FWER) or false discovery rate (FDR). FDR metrics have…

Quantitative Methods · Quantitative Biology 2007-05-23 Rishi L. Khan , Rajanikanth Vadigepalli , Guang Gao , James S. Schwaber

The positive false discovery rate (pFDR) is a useful overall measure of errors for multiple hypothesis testing, especially when the underlying goal is to attain one or more discoveries. Control of pFDR critically depends on how much…

Statistics Theory · Mathematics 2011-11-09 Zhiyi Chi

In modern scientific research, the objective is often to identify which variables are associated with an outcome among a large class of potential predictors. This goal can be achieved by selecting variables in a manner that controls the the…

Methodology · Statistics 2023-10-10 Yushu Shi , Michael Martens

While data-driven confounder selection requires careful consideration, it is frequently employed in observational studies. Widely recognized criteria for confounder selection include the minimal-set approach, which involves selecting…

Methodology · Statistics 2025-08-21 Kazuharu Harada , Masataka Taguri

In hypothesis testing, a false discovery occurs when a hypothesis is incorrectly rejected due to noise in the sample. When adaptively testing multiple hypotheses, the probability of a false discovery increases as more tests are performed.…

Machine Learning · Statistics 2020-10-22 Wanrong Zhang , Gautam Kamath , Rachel Cummings

An important limitation of standard multiple testing procedures is that the null distribution should be known. Here, we consider a null distribution-free approach for multiple testing in the following semi-supervised setting: the user does…

Statistics Theory · Mathematics 2022-12-08 David Mary , Etienne Roquain