add_regulatory_network

Provides functionality to infer trajectories from single-cell data,
represent them into a common format, and adapt them. Other biological information
can also be added, such as cellular grouping, RNA velocity and annotation.
Saelens et al. (2019) <doi:10.1038/s41587-019-0071-9>.

Robrecht Cannoodt

dynwrap

Representing and Inferring Single-Cell Trajectories

Wouter Saelens

add_regulatory_network function

<dl><dt>dataset</dt>
<dd>A dataset created by <code>wrap_data()</code> or <code>wrap_expression()</code></dd>
<dt>regulatory_network</dt>
<dd>A data frame consisting of three columns: <code>"regulator"</code>, <code>"target"</code>, <code>"strength"</code>.</dd>
<dt>regulatory_network_sc</dt>
<dd>A data frame consisting of four columns: <code>"cell_id"</code>, <code>"regulator"</code>, <code>"target"</code>, <code>"strength"</code>.</dd>
<dt>regulators</dt>
<dd>The feature ids of the regulators.</dd>
<dt>targets</dt>
<dd>The feature ids of the targets.</dd>
<dt>...</dt>
<dd>Extra arguments to be saved in the model.</dd></dl>

Arguments

Add a GRN to a dynwrap object — add_regulatory_network

<dl>

<dt>dataset</dt>
<dd>A dataset created by <code>wrap_data()</code> or <code>wrap_expression()</code></dd>


<dt>regulatory_network</dt>
<dd>A data frame consisting of three columns: <code>"regulator"</code>, <code>"target"</code>, <code>"strength"</code>.</dd>


<dt>regulatory_network_sc</dt>
<dd>A data frame consisting of four columns: <code>"cell_id"</code>, <code>"regulator"</code>, <code>"target"</code>, <code>"strength"</code>.</dd>


<dt>regulators</dt>
<dd>The feature ids of the regulators.</dd>


<dt>targets</dt>
<dd>The feature ids of the targets.</dd>


<dt>...</dt>
<dd>Extra arguments to be saved in the model.</dd>

</dl>

add_regulatory_network: Add a GRN to a dynwrap object

Description

Usage

Value

Arguments