ecodist (version 1.2.7)

plot.vf: Plots fitted vectors onto an ordination diagram

Description

Add vector fitting arrows to an existing ordination plot.

Usage

## S3 method for class 'vf':
plot(x, pval = 1, cex = 0.8, ascale = 0.9, ...)

Arguments

x

an object of S3 class vf, created by vf()

pval

optional, critical p-value for choosing variables to plot

cex

text size

ascale

optional, proportion of plot area to use when calculating arrow length

...

optional, other graphics parameters

Value

• Adds arrows to an existing ordination plot. Only arrows with a p-value less than pval are added. By default, all variables are shown.

See Also

vf

Examples

# Example of multivariate analysis using built-in iris dataset
data(iris)
iris <- iris[seq(1, 150, by=3),]
iris.md <- distance(iris[,1:4], "mahal")

# Minimum-stress 2-dimensional nonmetric multidimensional scaling configuration
# Uses small number of separate ordinations (5) to increase speed of example.
# Use more for final analysis.
iris.nmds <- nmds(iris.md, mindim=2, maxdim=2, nits=3)
iris.nmin <- nmds.min(iris.nmds)

# Plot NMDS result with symbols denoting species
plot(iris.nmin, pch=as.numeric(iris[,5]))

# Fit vectors for the main variables to the NMDS configuration
iris.vf <- vf(iris.nmin, iris[,1:4], nperm=10)
plot(iris.vf, col="blue")