throat.otu.tab

<p>Simulated code can be seen in ?KRV
Corresponding metadata is stored in "throat.meta"</p>

datasets

Test for overall association between microbiome composition data
and phenotypes via phylogenetic kernels. The phenotype can be univariate
continuous or binary (Zhao et al. (2015) <doi:10.1016/j.ajhg.2015.04.003>),
survival outcomes (Plantinga et al. (2017) <doi:10.1186/s40168-017-0239-9>),
multivariate (Zhan et al. (2017) <doi:10.1002/gepi.22030>) and
structured phenotypes (Zhan et al. (2017) <doi:10.1111/biom.12684>).
The package can also use robust regression (unpublished work) and
integrated quantile regression (Wang et al. (2021) <doi:10.1093/bioinformatics/btab668>).
In each case, the microbiome community effect is modeled nonparametrically
through a kernel function, which can incorporate phylogenetic tree information.

Anna Plantinga

MiRKAT

Microbiome Regression-Based Kernel Association Tests

Nehemiah Wilson

Haotian Zheng

Tianying Wang

Xiang Zhan

Michael Wu

Ni Zhao

Jun Chen

throat.otu.tab function

<p>60 rows and 856 columns, where rows are patients and columns are OTUs</p>

Format

Simulated OTU data for microbiome regression analysis — throat.otu.tab

Simulated OTU data for microbiome regression analysis

throat.otu.tab: Simulated OTU data for microbiome regression analysis

Description

Usage

Arguments

Format