plot_smooths

Plots data and smooths from <code>clustra</code> output or internally from within
<code>start_groups()</code>

Clusters longitudinal trajectories over time (can be unequally
spaced, unequal length time series and/or partially overlapping series) on
a common time axis. Performs k-means clustering on a single continuous
variable measured over time, where each mean is defined by a thin plate
spline fit to all points in a cluster. Distance is MSE across trajectory
points to cluster spline. Provides graphs of derived cluster splines,
silhouette plots, and Adjusted Rand Index evaluations of the number
of clusters. Scales well to large data with multicore parallelism available
to speed computation.

George Ostrouchov

clustra

Clustering Longitudinal Trajectories

David Gagnon

Hanna Gerlovin

Chen Wei-Chen

Schmidt Drew

Oak Ridge National Laboratory 

U.S. Department of Veteran's Affairs 

plot_smooths function

<dl><dt>data</dt>
<dd>The data. If after <code>clustra</code> run, it includes resulting clusters as group.</dd>
<dt>fits</dt>
<dd>The <code>tps</code> component of <code>clustra</code> output or internal <code>start_groups</code> fits.
If fits are supplied and <code>select.data</code> is NULL, the data is colored by
clusters. If NULL, or if <code>select.data</code> is not NULL, the data is black points.</dd>
<dt>max.data</dt>
<dd>The maximum number of data points to plot. If zero,
no points are plotted (overrides select.data). Use <code>Inf</code> value to plot all
points.</dd>
<dt>select.data</dt>
<dd>Either NULL or a list of length k, each element a data.frame (like data)
with time and response components. The select.data points will be
highlighted with cluster colors on the plot. This is used internally in the
<code>start_groups</code> function to show the selected starting points. In this case,
also the <code>fits</code> parameter can contain TPS fits to the starting points.</dd>
<dt>group</dt>
<dd>Character variable name in <code>data</code> to color the clusters. A NULL will produce
a b&amp;w point plot.</dd>
<dt>...</dt>
<dd>Other parameters to <code>plot</code> function, such as <code>xlim</code> or <code>ylim</code> axis limits.</dd></dl>

Arguments

plot_smooths — plot_smooths

<dl>

<dt>data</dt>
<dd>The data. If after <code>clustra</code> run, it includes resulting clusters as group.</dd>


<dt>fits</dt>
<dd>The <code>tps</code> component of <code>clustra</code> output or internal <code>start_groups</code> fits.
If fits are supplied and <code>select.data</code> is NULL, the data is colored by
clusters. If NULL, or if <code>select.data</code> is not NULL, the data is black points.</dd>


<dt>max.data</dt>
<dd>The maximum number of data points to plot. If zero,
no points are plotted (overrides select.data). Use <code>Inf</code> value to plot all
points.</dd>


<dt>select.data</dt>
<dd>Either NULL or a list of length k, each element a data.frame (like data)
with time and response components. The select.data points will be
highlighted with cluster colors on the plot. This is used internally in the
<code>start_groups</code> function to show the selected starting points. In this case,
also the <code>fits</code> parameter can contain TPS fits to the starting points.</dd>


<dt>group</dt>
<dd>Character variable name in <code>data</code> to color the clusters. A NULL will produce
a b&amp;w point plot.</dd>


<dt>...</dt>
<dd>Other parameters to <code>plot</code> function, such as <code>xlim</code> or <code>ylim</code> axis limits.</dd>

</dl>

plot_smooths: plot_smooths

Description

Usage

Arguments