TraMineR (version 1.6-2)

plot.stslist.rep: Plot method for representative sequence sets

Description

This is the plot method for output produced by the seqrep function, i.e objects of class stslist.rep. It produces a representative sequence plot.

Usage

## S3 method for class 'stslist.rep':
plot(x, cpal = NULL, missing.color=NULL, pbarw = TRUE,
       dmax = NULL, stats=TRUE, ylab = NULL, xaxis = TRUE,
       xtlab = NULL, cex.plot = 1, ...)

Arguments

x

an object of class stslist.rep as produced by the seqrep function.

cpal

alternative color palette to use for the states. If user specified, a vector of colors with number of elements equal to the number of states in the alphabet. By default, the 'cpal' attribute of the x object is used.

missing.color

alternative color for representing missing values inside the sequences. By default, this color is taken from the "missing.color" attribute of the sequence object being plotted.

pbarw

when TRUE, the bar heights are set proportional to the number of represented sequences.

dmax

maximal theoretical distance, used for the x axis limits.

stats

if TRUE (default), mean discrepancy in each subset defined by all sequences attributed to one representative sequence and the mean distance to this representative sequence are displayed.

ylab

an optional label for the y axis. If set to NA, no label is drawn.

xaxis

controls whether a x axis is plotted.

xtlab

optional labels for the x axis ticks labels. If unspecified, the column names of the object being plotted.

cex.plot

expansion factor for setting the size of the font for the axis labels and names. The default value is 1. Values lesser than 1 will reduce the size of the font, values greater than 1 will increase the size.

...

further graphical parameters. For more details about the graphical parameter arguments, see barplot and par.

encoding

latin1

Details

This is the plot method for the output produced by the seqrep function, i.e. objects of class stslist.rep. It produces a plot where the representative sequences are displayed as horizontal bars with width proportional to the number of sequences assigned to them. Sequences are plotted bottom-up according to their representativeness score. Above the plot, two parallel series of symbols associated to each representative are displayed horizontally on a scale ranging from 0 to the maximal theoretical distance $D_{max}$. The location of the symbol associated to the representative $r_i$ indicates on axis $A$ the (pseudo) variance ($V_i$) within the subset of sequences assigned to $r_i$ and on the axis $B$ the mean distance $MD_i$ to the representative. This method is called by the generic seqplot function (if type="r") that produces more sophisticated plots with group splits and automatic display of the color legend. The seqrplot function is a shortcut for calling seqplot with type="r".

References

Gabadinho, A., G. Ritschard, M. Studer and N. S. M�ller (2009). Summarizing Sets of Categorical Sequences, In International Conference on Knowledge Discovery and Information Retrieval, Madeira, 6-8 October, INSTICC.

Examples

## Loading the mvad data set and creating a sequence object
data(mvad)
mvad.labels <- c("employment", "further education", "higher education",
                    "joblessness", "school", "training")
mvad.scodes <- c("EM","FE","HE","JL","SC","TR")
mvad.seq <- seqdef(mvad, 15:86, states=mvad.scodes, labels=mvad.labels)

## Computing optimal matching distances
submat   <- seqsubm(mvad.seq, method= "TRATE")
dist.om1 <- seqdist(mvad.seq, method="OM", indel=1, sm=submat)

## Extracting a representative set using the sequence frequency
## as a representativeness criterion
mvad.rep <- seqrep(mvad.seq, dist.matrix=dist.om1)

## Plotting the representative set
plot(mvad.rep)