Find minimum stress configuration
Finds minimum stress configuration from output of nmds()
## S3 method for class 'nmds' min(..., na.rm = FALSE, dims = 2) nmds.min(x, dims = 2)
... |
output from nmds() |
x |
output from nmds() |
dims |
desired dimensionality of result. If dims = 0 then the overall minimum stress configuration is chosen. By default, the best two-dimensional configuration is returned. |
na.rm |
Not used; there should be no NA values in a NMDS configuration. |
For back-compatibility, the nmds.min function remains.
Configuration of minimum stress ordination (dataframe of coordinates). The stress and r^2 for the minimum stress configuration are stored as attributes.
Sarah Goslee
data(iris) iris.d <- dist(iris[,1:4]) ### nmds() is timeconsuming, so this was generated ### in advance and saved. ### set.seed(1234) ### iris.nmds <- nmds(iris.d, nits=20, mindim=1, maxdim=4) ### save(iris.nmds, file="ecodist/data/iris.nmds.rda") data(iris.nmds) # examine fit by number of dimensions plot(iris.nmds) # choose the best two-dimensional solution to work with iris.nmin <- min(iris.nmds, dims=2)
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