check_phyloseq

Check that the dimensions of the agpca object match the phyloseq
object and that the phyloseq object has a taxonomy table and a
phylogenetic tree.

internal

Implements adaptive gPCA, as described in: Fukuyama, J. (2017)
<arXiv:1702.00501>. The package also includes functionality for applying
the method to 'phyloseq' objects so that the method can be easily applied
to microbiome data and a 'shiny' app for interactive visualization.

Julia Fukuyama

adaptiveGPCA

Adaptive Generalized PCA

check_phyloseq function

<dl><dt>agpcafit</dt>
<dd>An adaptivegpca object.</dd>
<dt>physeq</dt>
<dd>A phyloseq object.</dd></dl>

Arguments

Check compatibility of agpca and phyloseq objects — check_phyloseq

<dl>

<dt>agpcafit</dt>
<dd>An adaptivegpca object.</dd>


<dt>physeq</dt>
<dd>A phyloseq object.</dd>

</dl>

check_phyloseq: Check compatibility of agpca and phyloseq objects

Description

Usage

Arguments