calculate_pseudotime

add_pseudotime

When calculating the pseudotime, the trajectory is expected to be rooted (see <code>add_root()</code>)

derive_trajectory

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

calculate_pseudotime function

<dl><dt>trajectory</dt>
<dd>The trajectory as created by <code>infer_trajectory()</code> or <code>add_trajectory()</code></dd>
<dt>pseudotime</dt>
<dd>Named vector containing the pseudotime for every cell. If not given, the pseudotime will be calculated.</dd></dl>

Arguments

Add or calculate pseudotime as distance from the root — calculate_pseudotime

<dl>

<dt>trajectory</dt>
<dd>The trajectory as created by <code>infer_trajectory()</code> or <code>add_trajectory()</code></dd>


<dt>pseudotime</dt>
<dd>Named vector containing the pseudotime for every cell. If not given, the pseudotime will be calculated.</dd>

</dl>

calculate_pseudotime: Add or calculate pseudotime as distance from the root

Description

Usage

Value

Arguments

See Also