Index plot of sequences orderred according to a dendrogram

Source: R/sequences.R

Index plot of state sequences. Sequences are ordered accoring to the specified dendrogram. The dendrogram is also plotted on the side of the index plot.

seq_heatmap(seq, tree, with.missing = FALSE, ...)

Arguments

seq

a state sequence object created with the seqdef function

tree

a dendrogram of the sequences (an object of class hclust, dendrogram or agnes)

with.missing

is there a 'missing value' state in the sequences?

...

additional parameters sent to heatmap

See also

seqIplot

Examples

if (require(TraMineR) & require(cluster)) {
  data(mvad)
  mvad.seq <- seqdef(mvad[, 17:86])
  mvad.lcs <- seqdist(mvad.seq, method = "LCS")
  mvad.hc <- agnes(mvad.lcs, method = "ward")
  seq_heatmap(mvad.seq, mvad.hc)
  seqIplot(mvad.seq, sortv = cutree.order(mvad.hc, nrow(mvad.seq)))
}
#> Loading required package: TraMineR
#> 
#> TraMineR stable version 2.2-6 (Built: 2022-12-02)
#> Website: http://traminer.unige.ch
#> Please type 'citation("TraMineR")' for citation information.
#> Loading required package: cluster
#>  [>] 6 distinct states appear in the data: 
#>      1 = FE
#>      2 = HE
#>      3 = employment
#>      4 = joblessness
#>      5 = school
#>      6 = training
#>  [>] state coding:
#>        [alphabet]  [label]     [long label] 
#>      1  FE          FE          FE
#>      2  HE          HE          HE
#>      3  employment  employment  employment
#>      4  joblessness joblessness joblessness
#>      5  school      school      school
#>      6  training    training    training
#>  [>] 712 sequences in the data set
#>  [>] min/max sequence length: 70/70
#>  [>] 712 sequences with 6 distinct states
#>  [>] creating a 'sm' with a substitution cost of 2
#>  [>] creating 6x6 substitution-cost matrix using 2 as constant value
#>  [>] 490 distinct  sequences 
#>  [>] min/max sequence lengths: 70/70
#>  [>] computing distances using the LCS metric
#>  [>] elapsed time: 2.736 secs