nmds.min {ecodist} | R Documentation |
Finds minimum stress configuration from output of nmds()
nmds.min(x, dims = 0)
x |
output from nmds() |
dims |
desired dimensionality of result. If dims == 0 (the default) then the overall minimum stress configuration is chosen. |
Configuration of minimum stress ordination (dataframe of coordinates).
Sarah Goslee, Sarah.Goslee@ars.usda.gov
## Not run: # 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") ## End(Not run)