fitted.symcoca {cocorresp} | R Documentation |
Calculates and extracts the fitted values of a Symmetric Co-Correpsondence analysis model.
## S3 method for class 'symcoca'
fitted(object, which = c("y1","y2"), ...)
object |
an object of class |
which |
character; should the response or predictor scores be
plotted. Can be specified in several ways: response choices
are one from |
... |
arguments to be passed to other methods. |
A list with the following components:
Y |
the fitted values for the “response” matrix. |
X |
the fitted values for the “predictor” matrix. |
nam.dat |
a vector containing the names of the “response” and “predictor” matrices respectively. Used for printing the results. |
This function needs an update and to allow option to restrict fitted values to specified axes, and the names of the returned objects need making more obvious!
Gavin L. Simpson, based on Matlab code by C.J.F. ter Braak and A.P. Schaffers.
Ter Braak, C.J.F and Schaffers, A.P. (2004) Co-Correspondence Analysis: a new ordination method to relate two community compositions. Ecology 85(3), 834–846
The model fitting function coca
## symmetric CoCA
data(beetles)
data(plants)
## log transform the bettle data
beetles <- log(beetles + 1)
## fit the model
bp.sym <- coca(beetles ~ ., data = plants, method = "symmetric")
## fitted values
bp.fit <- fitted(bp.sym)
bp.fit
## fitted values for beetles only
beetle.fit <- fitted(bp.sym, which = "y1")