gpcaEvecs

Performs gPCA with pre-computed eigenvectors and eigenvalues.

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

gpcaEvecs function

<dl><dt>X</dt>
<dd>Data matrix.</dd>
<dt>evecs</dt>
<dd>Eigenvectors of <code>Q</code>, the inner product/similarity
matrix.</dd>
<dt>evals</dt>
<dd>Eigenvalues of <code>Q</code>.</dd>
<dt>D</dt>
<dd>Sample weights</dd>
<dt>k</dt>
<dd>The number of components to return.</dd></dl>

Arguments

gPCA using pre-computed eidendecomposition — gpcaEvecs

<dl>

<dt>X</dt>
<dd>Data matrix.</dd>


<dt>evecs</dt>
<dd>Eigenvectors of <code>Q</code>, the inner product/similarity
matrix.</dd>


<dt>evals</dt>
<dd>Eigenvalues of <code>Q</code>.</dd>


<dt>D</dt>
<dd>Sample weights</dd>


<dt>k</dt>
<dd>The number of components to return.</dd>

</dl>

gpcaEvecs: gPCA using pre-computed eidendecomposition

Description

Usage

Arguments