plot_silhouettes

Implementation of the scregclust algorithm
described in Larsson, Held, et al. (2024) <doi:10.1038/s41467-024-53954-3>
which reconstructs regulatory programs of target genes in scRNA-seq data.
Target genes are clustered into modules and each module is associated with a linear
model describing the regulatory program.

Felix Held

scregclust

Reconstructing the Regulatory Programs of Target Genes in
scRNA-Seq Data

Ida Larsson

Sven Nelander

André Armatowski

plot_silhouettes function

<dl><dt>list_of_fits</dt>
<dd>A list of <code>scregclust</code> objects each fit to the same
dataset across a variety of module counts (varying
<code>n_modules</code> when running <code>scregclust</code>).</dd>
<dt>penalization</dt>
<dd>Either a single numeric value requesting the results
for the same penalty parameter across all fits in
<code>list_of_fits</code>, or one for each individual fit.</dd>
<dt>final_config</dt>
<dd>The final configuration that should be visualized.
Either a single number to be used for all fits in
<code>list_of_fits</code>, or one for each individual fit.</dd></dl>

Arguments

Plot individual silhouette scores — plot_silhouettes

<dl>

<dt>list_of_fits</dt>
<dd>A list of <code>scregclust</code> objects each fit to the same
dataset across a variety of module counts (varying
<code>n_modules</code> when running <code>scregclust</code>).</dd>


<dt>penalization</dt>
<dd>Either a single numeric value requesting the results
for the same penalty parameter across all fits in
<code>list_of_fits</code>, or one for each individual fit.</dd>


<dt>final_config</dt>
<dd>The final configuration that should be visualized.
Either a single number to be used for all fits in
<code>list_of_fits</code>, or one for each individual fit.</dd>

</dl>

plot_silhouettes: Plot individual silhouette scores

Description

Usage

Value

Arguments