vargenes_vst

Function to find variable genes using variance stabilizing transform (vst) method

Implements the Symphony single-cell reference building and query mapping algorithms and additional functions described in Kang et al <https://www.nature.com/articles/s41467-021-25957-x>.

Joyce Kang

symphony

Efficient and Precise Single-Cell Reference Atlas Mapping

Ilya Korsunsky

Soumya Raychaudhuri

vargenes_vst function

<dl><dt>object</dt>
<dd>expression matrix</dd>
<dt>groups</dt>
<dd>finds variable genes within each group then pools</dd>
<dt>topn</dt>
<dd>Return top n genes</dd>
<dt>loess.span</dt>
<dd>Loess span parameter used when fitting the variance-mean relationship</dd></dl>

Arguments

Function to find variable genes using variance stabilizing transform (vst) method — vargenes_vst

<dl>

<dt>object</dt>
<dd>expression matrix</dd>


<dt>groups</dt>
<dd>finds variable genes within each group then pools</dd>


<dt>topn</dt>
<dd>Return top n genes</dd>


<dt>loess.span</dt>
<dd>Loess span parameter used when fitting the variance-mean relationship</dd>

</dl>

vargenes_vst: Function to find variable genes using variance stabilizing transform (vst) method

Description

Usage

Value

Arguments