plot.votes_tsne: Plot votes_tsne

In pmartinezarbizu/RFtools: Miscellaneous Tools For Random Forest Models

Description

Plot a votes_tsne object

Usage

## S3 method for class 'votes_tsne'
plot(
  x,
  cex = 1.5,
  pch = coltable$symbol[match(x$predicted, coltable$class)],
  bg = coltable$color[match(x$predicted, coltable$class)],
  main = "",
  alpha = 220,
  margin = 7,
  ncol = 4,
  x.intersp = 1,
  y.low = 3,
  pal = colors
)

Arguments

x	A votes_tsne object
bg	Fill color of symbols
main	Title passed to plot
alpha	The transparency value for the symbols
margin	The Graphical parameter passed to oma for the lower margin, to accomodate legend
ncol	The number of columns for the legend
x.intersp	Space between legend symbol and legend text
y.low	Distance of legend from y axis
pal	Color palette to be sued for symbols (default is internal colors)

Details

Plot the resuls of a t-sne analysis of the randomForest votes matrix. The fuction has an internal color palette 'colors' that allows for ajustement of the transparency values using the parameter alpha. USe your own color palette with the parameter pal (note that alpha will not wrok then) The graph legend can be easyly placed at the bottom of the graph using the parameters margin, ncol and y.low.

Author(s)

Pedro Martinez Arbizu

See Also

votes.tsne

Examples

data(maldi)
rf <- randomForest(species ~.,data = maldi[,-1])
vt <- votes.tsne(rf)
plot(vt)
plot(vt,margin=5,y.low=3,ncol=3,cex=2,alpha=180,main='rf votes on Maldi-Tof spectra')

pmartinezarbizu/RFtools documentation built on March 10, 2021, 12:11 p.m.