plot.symcoca {cocorresp}  R Documentation 
Produces plots of the response and predictor from the results of a symmetric cocorrespondence analysis.
## S3 method for class 'symcoca'
plot(x,
which = "response",
choices = 1:2,
display = c("species", "sites"),
scaling = FALSE,
type,
xlim = NULL,
ylim = NULL,
main = "",
sub = "",
ylab, xlab,
ann = par("ann"),
axes = TRUE,
...)
x 
an object of class 
which 
character; should the response or predictor scores be plotted. 
choices 
a vector of length 2 indicating which predictive CoCA axes to plot. 
display 
which sets of scores are drawn. See

scaling 
logical, whether scaling should be applied. See

type 
one of 
xlim, ylim 
limits for the x and y axes. If non supplied, suitable limits will be determined from the data. 
xlab, ylab 
labels for the x and y axes. If non supplied suitable labels are formed from the result object. 
main, sub 
the main and sub titles for the plot. 
ann 
logical, if TRUE plots are annotated and not if FALSE, currently ignored. 
axes 
a logical value indicating whether both axes should be drawn on the plot. 
... 
other graphical parameters as in 'par' may also be passed as arguments. 
Gavin L. Simpson.
Ter Braak, C.J.F and Schaffers, A.P. (2004) CoCorrespondence Analysis: a new ordination method to relate two community compositions. Ecology 85(3), 834–846
## symmetric CoCA
data(beetles)
data(plants)
## log transform the beetle data
beetles < log(beetles + 1)
## fit the model
bp.sym < coca(beetles ~ ., data = plants, method = "symmetric")
## draw a plot of the response scores
plot(bp.sym)
## plot of both
layout(matrix(1:2, ncol = 2))
plot(bp.sym, which = "response", main = "Beetles")
plot(bp.sym, which = "predictor", main = "Plants")
layout(1)