Description Usage Arguments Value Author(s) Examples
This function plots clusters over a set of trajectories as joint, coloured bar plots. The clusters are sorted beginning with the most populated one in descending order.
1 2 3 4 5 |
clusters |
Matrix with clusters: trajectories are given in row-wise, clusters in column-wise fashion as provided by |
clustersNumber |
When specified, only these first clusters are shown. |
legendTitle |
The title of the legend. |
barePlot |
Boolean, indicating whether the plot is to be made without any additional information. |
... |
Additional arguments (ellipsis). |
Returns a n
xm
-matrix with n
being the number of input trajectories and m
the number of different clusters. Each element in the matrix holds the number of snapshots, the respective cluster occurred in the respective trajectory.
Christian Margreitter
1 2 3 | # GROMOS (see load_clusters() for other input possibilities)
clusters( load_clusters( system.file( "extdata/clusters_example.txt.gz",
package = "MDplot" ) ) )
|
Loading required package: MASS
Loading required package: RColorBrewer
Loading required package: gplots
Attaching package: 'gplots'
The following object is masked from 'package:stats':
lowess
Loading required package: gtools
cluster1 cluster2 cluster3 cluster4 cluster5 cluster6 cluster7 cluster8
1 8539 0 175 0 0 284 0 0
2 3027 5224 0 178 62 3 370 1
3 8926 0 0 0 0 71 0 0
4 7999 0 928 0 0 37 0 0
5 2993 5064 12 390 368 7 0 106
6 8837 0 122 0 0 26 0 0
cluster9 cluster10 cluster11 cluster12 cluster13 cluster14 cluster15
1 0 0 0 0 0 0 0
2 65 3 10 23 10 12 0
3 0 0 2 0 0 0 0
4 0 35 0 0 0 0 0
5 9 0 19 0 11 3 11
6 0 8 6 0 0 0 0
cluster16 cluster17 cluster18 cluster19 cluster20 cluster21 cluster22
1 0 0 0 2 0 0 0
2 4 4 0 0 3 0 1
3 0 0 0 1 0 0 0
4 0 0 0 0 0 0 0
5 0 0 4 0 0 2 0
6 0 0 0 0 0 0 0
cluster23 cluster24 cluster25
1 0 0 0
2 0 0 0
3 0 0 0
4 1 0 0
5 0 1 0
6 0 0 1
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