plotPearsonRes

This function plots the variance versus the mean of the Pearson residuals obtained by the negative binomial regression computed by the function <code>compY</code> if <code>regNB</code> is <code>TRUE</code>. A local regression is also shown.

Application of 'RaceID' allows inference of cell types and prediction of lineage trees by the 'StemID2' algorithm (Herman, J.S., Sagar, Grun D. (2018) <DOI:10.1038/nmeth.4662>). 'VarID2' is part of this package and allows quantification of biological gene expression noise at single-cell resolution (Rosales-Alvarez, R.E., Rettkowski, J., Herman, J.S., Dumbovic, G., Cabezas-Wallscheid, N., Grun, D. (2023) <DOI:10.1186/s13059-023-02974-1>).

Dominic Grc3<bc>n

RaceID

Identification of Cell Types, Inference of Lineage Trees, and
Prediction of Noise Dynamics from Single-Cell RNA-Seq Data

Dominic Grün

plotPearsonRes function

<dl><dt>y</dt>
<dd>List object returned by the <code>compNoise</code> or <code>pruneKnn</code> function (if run with <code>regNB=TRUE</code>).</dd>
<dt>log</dt>
<dd>logical. If <code>TRUE</code> then the y-axis is log-transformed. Default is <code>FALSE</code>.</dd>
<dt>...</dt>
<dd>Additional arguments for <code>plot</code>.</dd></dl>

Arguments

Function for plotting the variance of Pearson residuals — plotPearsonRes

<dl>

<dt>y</dt>
<dd>List object returned by the <code>compNoise</code> or <code>pruneKnn</code> function (if run with <code>regNB=TRUE</code>).</dd>


<dt>log</dt>
<dd>logical. If <code>TRUE</code> then the y-axis is log-transformed. Default is <code>FALSE</code>.</dd>


<dt>...</dt>
<dd>Additional arguments for <code>plot</code>.</dd>

</dl>

plotPearsonRes: Function for plotting the variance of Pearson residuals

Description

Usage

Value

Arguments

Examples