plotNoiseModel

This function plots the variance against mean expression across all genes and a second order polynomial to the base line of the variance-mean dependence in log space.

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

plotNoiseModel function

<dl><dt>x</dt>
<dd>List object returned by function <code>noiseBaseFit</code> or function <code>compNoise</code>.</dd>
<dt>corrected</dt>
<dd>logical value. If <code>TRUE</code>, then the variance is plotted after regressing our the mean dependence.</dd></dl>

Arguments

Function for plotting the baseline model of gene expression variability — plotNoiseModel

<dl>

<dt>x</dt>
<dd>List object returned by function <code>noiseBaseFit</code> or function <code>compNoise</code>.</dd>


<dt>corrected</dt>
<dd>logical value. If <code>TRUE</code>, then the variance is plotted after regressing our the mean dependence.</dd>

</dl>

plotNoiseModel: Function for plotting the baseline model of gene expression variability

Description

Usage

Value

Arguments

Examples