throat.tree

<p>Simulation code can be seen in ?KRV</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The package can also use robust regression (unpublished work) and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.tree function

<p>Phylogenetic tree with 856 tips and 855 internal nodes</p>

Format

Simulated rooted phylogenetic tree — throat.tree

Simulated rooted phylogenetic tree

throat.tree: Simulated rooted phylogenetic tree

Description

Usage

Arguments

Format

Details