plotsilhouette

This functions produces a silhouette plot for RaceID3 clusters prior or post outlier identification.

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

plotsilhouette function

<dl><dt>object</dt>
<dd><code>SCseq</code> class object.</dd>
<dt>final</dt>
<dd>logical. If <code>TRUE</code>, then plot silhouette coefficients for final clusters after outlier identification.
Default is <code>FALSE</code> and silhouette coefficients are plotted for initial clusters.</dd></dl>

Arguments

Plot Cluster Silhouette — plotsilhouette

<dl>

<dt>object</dt>
<dd><code>SCseq</code> class object.</dd>


<dt>final</dt>
<dd>logical. If <code>TRUE</code>, then plot silhouette coefficients for final clusters after outlier identification.
Default is <code>FALSE</code> and silhouette coefficients are plotted for initial clusters.</dd>

</dl>

plotsilhouette: Plot Cluster Silhouette

Description

Usage

Value

Arguments