plot.npEM: Plot Nonparametric or Semiparametric EM Output

In mixtools: Tools for Analyzing Finite Mixture Models

Plot Nonparametric or Semiparametric EM Output

Description

Takes an object of class npEM and returns a set of plots of the density estimates for each block and each component. There is one plot per block, with all the components displayed on each block so it is possible to see the mixture structure for each block.

Usage

## S3 method for class 'npEM'
plot(x, blocks = NULL, hist=TRUE, addlegend = TRUE,
      scale=TRUE, title=NULL, breaks="Sturges", ylim=NULL, dens.col,
      newplot = TRUE, pos.legend = "topright", cex.legend = 1, ...)         
## S3 method for class 'spEM'
plot(x, blocks = NULL, hist=TRUE, addlegend = TRUE,
      scale=TRUE, title=NULL, breaks="Sturges", ylim=NULL, dens.col,
      newplot = TRUE, pos.legend = "topright", cex.legend = 1, ...)

Arguments

x	An object of class npEM such as the output of the npEM function
blocks	Blocks (of repeated measures coordinates) to plot; not relevant for univariate case. Default is to plot all blocks.
hist	If TRUE, superimpose density estimate plots on a histogram of the data
addlegend	If TRUE, adds legend to the plot.
scale	If TRUE, scale each density estimate by its corresponding estimated mixing proportion, so that the total area under all densities equals 1 and the densities plotted may be added to produce an estimate of the mixture density. When FALSE, each density curve has area 1 in the plot.
title	Alternative vector of main titles for plots (recycled as many times as needed)
breaks	Passed directly to the hist function
ylim	ylim parameter to use for all plots, if desired. If not given, each plot uses its own ylim that ensures that no part of the plot will go past the top of the plotting area.
dens.col	Color values to use for the individual component density functions, repeated as necessary. Default value is 2:(m+1).
newplot	If TRUE, creates a new plot.
pos.legend	Single argument specifying the position of the legend. See ‘Details’ section of legend.
cex.legend	Character expansion factor for legend.
...	Any remaining arguments are passed to the hist and lines functions.

Value

plot.npEM returns a list with two elements:

x	List of matrices. The jth column of the ith matrix is the vector of x-values for the jth density in the ith plot.
y	y-values, given in the same form as the x-values.

See Also

npEM, density.npEM, spEMsymloc, plotseq.npEM

Examples

 
## Examine and plot water-level task data set.

## First, try a 3-component solution where no two coordinates are
## assumed i.d.
data(Waterdata)
set.seed(100)
## Not run: 
a <- npEM(Waterdata[,3:10], 3, bw=4)
par(mfrow=c(2,4))
plot(a) # This produces 8 plots, one for each coordinate

## End(Not run)

## Not run: 
## Next, same thing but pairing clock angles that are directly opposite one
## another (1:00 with 7:00, 2:00 with 8:00, etc.)
b <- npEM(Waterdata[,3:10], 3, blockid=c(4,3,2,1,3,4,1,2), bw=4)
par(mfrow=c(2,2))
plot(b) # Now only 4 plots, one for each block

## End(Not run)

mixtools documentation built on Dec. 5, 2022, 5:23 p.m.