R: Visualizing a SOM

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 0.3-5.1 Index]