plot.dissimilarities {analogue} R Documentation

## Plots the distribution of extracted dissimilarities

### Description

Produces a plot of the distribution of the extracted dissimilarities and a reference normal distribution with comparable mean and sd.

### Usage

## S3 method for class 'dissimilarities'
plot(x, prob = 0.05,
legend = TRUE, n.rnorm = 1e+05, col = "black",
col.ref = "red", lty = "solid", lty.quant = "dotted",
xlab = NULL, ylab = NULL, main = NULL, sub = NULL, ...)


### Arguments

 x an object of class "dissimilarities". prob numeric; density probability defining the threshold for close modern analogues. legend logical; draw a legend on the plotted figure? n.rnorm numeric; number of random normal deviates for reference line. col, col.ref colours for the dissimilarity and reference density functions drawn. lty, lty.quant line types for the dissimilarity and reference density functions drawn. xlab, ylab character; x- and y-axis labels. main, sub character; main and subtitle for the plot. ... graphical arguments passed to other graphics functions.

### Value

A plot on the currently active device.

### Author(s)

Gavin L. Simpson

dissimilarities

### Examples

## Imbrie and Kipp example
data(ImbrieKipp)
data(SumSST)
data(V12.122)

## merge training and test set on columns
dat <- join(ImbrieKipp, V12.122, verbose = TRUE)

## extract the merged data sets and convert to proportions
ImbrieKipp <- dat[[1]] / 100
V12.122 <- dat[[2]] / 100

## analog matching between SWAPImbrie & Kipp and V12.122 core
ik.analog <- analog(ImbrieKipp, V12.122, method = "chord")
ik.analog
summary(ik.analog)

## compare training set dissimilarities with normals
## and derive cut-offs
ik.dij <- dissim(ik.analog)
plot(ik.dij)


[Package analogue version 0.17-6 Index]