plot.som {som}R Documentation

Visualizing a SOM

Description

Plot the SOM in a 2-dim map with means and sd bars.

Usage

## S3 method for class 'som':
plot(x, sdbar=1, ylim=c(-3, 3), color=TRUE,
ntik=3, yadj=0.1, xlab="", ylab="", ...)

Arguments

x a som object
sdbar the length of sdbar in sd, no sdbar if sdbar=0
ylim the range of y axies in each cell of the map
color whether or not use color plotting
ntik the number of tiks of the vertical axis
yadj the proportion used to put the number of obs
xlab x label
ylab y label
... other options to plot

Note

This function is not cleanly written. The original purpose was to mimic what GENECLUSTER does. The ylim is hardcoded so that only standardized data could be properly plotted.

There are visualization methods like umat and sammon in SOM_PAK3.1, but not implemented here.

Author(s)

Jun Yan <jyan@stat.uiowa.edu>

Examples

foo <- som(matrix(rnorm(1000), 250), 3, 5)
plot(foo, ylim=c(-1, 1))

[Package som version 0.3-4 Index]