clusters_ts {MDplot}

Cluster timeseries plot

Description

This function plots distributions between clusters over time. In the top sub-plot, the overall distribution is given, while the timeseries is given at the bottom. The clusters are sorted beginning with the most populated one and then in descending order. Selections can be made and clusters that are not selected do also not appear in the timeseries plot (white areas).

Usage

clusters_ts( clustersDataTS,
             clustersNumber = NA,
             selectTraj = NA,
             selectTime = NA,
             timeUnit = NA,
             snapshotsPerTimeInt = 1000,
             ... )

Arguments

clustersDataTS

List of cluster information as provided by load_clusters_ts(), the associated loading function.

clustersNumber

Integer, specifying the number of clusters that is to be plotted.

selectTraj

Vector of indices of trajectories that are to be plotted (as given in the input file).

selectTime

Range of time in snapshots, which is to be plotted.

timeUnit

Abbreviation of time unit.

snapshotsPerTimeInt

Specifies, how many snapshots make up one time unit.

...

Additional arguments (ellipsis).

Value

Returns a summary (n+1)xm-matrix with n being the number of input trajectories and m the number of different clusters (which have been plotted). Each element in the matrix holds the number of snapshots, the respective cluster occured in the respective trajectory. In addition, the first line is the overall summary counted over all trajectories.

Author(s)

Christian Margreitter

Examples

# GROMOS (see load_clusters_ts() for other input possibilities)
clusters_ts( load_clusters_ts( system.file( "extdata/clusters_ts_example.txt.gz",
                               package = "MDplot" ),
                               lengths = c( 4000, 4000, 4000, 4000, 4000, 4000 ) ),
             clustersNumber = 7 )