labdsv: ordcomp – R documentation

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ordcomp

Ordination to Dissimilarity Comparison

Description

Plots the distribution of pair-wise distances of all points in an ordination over the distances in the dissimilarity or distance matrix the ordination was calculated from. Prints the correlation between the two on the graph.

Usage

ordcomp(x,dis,dim,xlab="Computed Distance",
        ylab="Ordination Distance",title="",pch=1)

Arguments

`x`	an ordination object of class ‘dsvord’ from `pca`, `pco`, `nmds`, `fso` or `ordiplot`
`dis`	an object of class `dist`
`dim`	the number of dimensions in the ordination to use (default=all)
`xlab`	the X axis label for the graph
`ylab`	the Y axis label for the graph
`title`	a title for the plot
`pch`	the symbol to plot

Value

A plot is created on the current graphics device. Returns the (invisible) correlation.

Note

Ordinations are low dimensional representations of multidimensional spaces. This function attempts to portray how well the low dimensional solution approximates the full dimensional space.

Author(s)

David W. Roberts droberts@montana.edu http://ecology.msu.montana.edu/droberts/droberts.html

References

http://ecology.msu.montana.edu/labdsv/R/labs/lab9/lab9.html

Examples

data(bryceveg) # produces a vegetation data.frame
dis.bc <- dsvdis(bryceveg,'bray/curtis') # creates a Bray/Curtis 
                                         # dissimilarity matrix
pco.bc <- pco(dis.bc,2) # produces a two-dimensional Principal 
                        # Coordinates Ordination object
ordcomp(pco.bc,dis.bc)

labdsv

Ordination and Multivariate Analysis for Ecology

v2.0-1

GPL (>= 2)

Authors

David W. Roberts <droberts@montana.edu>

Initial release