R: Reconstruct Model Frame and Model Matrices of Constrained...

model.matrix.cca {vegan} | R Documentation

## Reconstruct Model Frame and Model Matrices of Constrained Ordination

### Description

Function `model.frame.cca` reconstructs a `data.frame` with the variables used in the constrained ordination method (`cca`, `rda` or `capscale`. Function `model.matrix.cca` creates a list of design matrices used in constrained ordination. The items of the list are called `Conditions` and `Constraints`. If either partial (`Conditions`) or constrained component was missing, a single matrix is returned.

### Usage

    ## S3 method for class 'cca'
    model.frame(formula, ...)
    ## S3 method for class 'cca'
    model.matrix(object, ...)

### Arguments

`formula, object` | A constrained ordination result object from which the needed information is extracted.
`...` | Other arguments passed to the default method of the function.

### Details

The constrained ordination method objects do not save data on model frame or design matrix, and the functions must reconstruct the information in the session. This will fail if the data sets and variables of the original model are unavailable.

### Value

Returns a data frame (`model.frame`) or an unnamed matrix or a list of two matrices called `Constraints` and `Conditions` (`model.matrix`).

### Author(s)

Jari Oksanen

### See Also

`model.frame`, `model.matrix`.

### Examples

    data(dune)
    data(dune.env)
    mod <- cca(dune ~  poly(A1, 2) + Management + Use, dune.env)
    model.frame(mod)
    model.matrix(mod)

[Package vegan version 2.4-3 Index]