fspa: Flexible shortest path adjustment
In dave: Functions for "Data Analysis in Vegetation Ecology"

Description Usage Arguments Value Author(s) References Examples

Flexible shortest path adjustment is a heuristic ordination method attempting to adjust pattern to ecological situations. It erases long distances in the resemblance matrix and replaces these by the sum of intermediate steps. Subsequent ordination uses function pco.

fspa(veg, method, d.rev, n.groups, ...)
fspa2(veg,method,d.rev=0.5,n.groups=3)

## Default S3 method:
fspa(veg, method, d.rev, n.groups, ...)
## S3 method for class 'fspa'
plot(x,...,axes=c(1,2))

`veg`	A data frame of vegetation releves (rows) by species (columns)
`method`	The method used for calculating distance as available in function vegdist of package vegan, for instance method = "bray".
`d.rev`	The percentage of distances revised, for instance 0.5 (50 percent, the default).
`n.groups`	This classifies the data points for illustrative purposes (uses Ward's method).
`...`	Variable axes=c(1,2) (default), the axes to be plotted
`x`	An object of class "fspa".
`axes`	A vector of length two, assessing the axes used for plotting. Default is c(1,2).

An output list of class "fspa" with at least the following intems:

`oldpoints`	Ordination scores before adjustment
`newpoints`	Ordination scores after adjustment
`symbols`	The symbols used for classified plot
`nline`	The number of lines to be drawn in the graph
`startline`	Coordinates where the lines start
`endline`	Coordinates where the lines end
`dmat.before`	Distance matrix before analysis
`dmat.after`	Distance matrix after analysis
`endline`	Coordinates where the lines end
`d.rev`	proportion of distances revised