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MiRKAT: kernel machine regression-based global association tests for the microbiome.

ABSTRACT:

Summary

Distance-based tests of microbiome beta diversity are an integral part of many microbiome analyses. MiRKAT enables distance-based association testing with a wide variety of outcome types, including continuous, binary, censored time-to-event, multivariate, correlated and high-dimensional outcomes. Omnibus tests allow simultaneous consideration of multiple distance and dissimilarity measures, providing higher power across a range of simulation scenarios. Two measures of effect size, a modified R-squared coefficient and a kernel RV coefficient, are incorporated to allow comparison of effect sizes across multiple kernels.

Availability and implementation

MiRKAT is available on CRAN as an R package.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Wilson N

PROVIDER: S-EPMC8495888 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature

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MiRKAT: kernel machine regression-based global association tests for the microbiome.

Wilson Nehemiah N Zhao Ni N Zhan Xiang X Koh Hyunwook H Fu Weijia W Chen Jun J Li Hongzhe H Wu Michael C MC Plantinga Anna M AM

Bioinformatics (Oxford, England) 20210701 11

<h4>Summary</h4>Distance-based tests of microbiome beta diversity are an integral part of many microbiome analyses. MiRKAT enables distance-based association testing with a wide variety of outcome types, including continuous, binary, censored time-to-event, multivariate, correlated and high-dimensional outcomes. Omnibus tests allow simultaneous consideration of multiple distance and dissimilarity measures, providing higher power across a range of simulation scenarios. Two measures of effect size ...[more]

PMID: 33225342

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