R: Partial Triadic Analysis of a K-tables

pta {ade4} | R Documentation

## Partial Triadic Analysis of a K-tables

### Description

performs a partial triadic analysis of a K-tables, using an object of class `ktab`.

### Usage

    pta(X, scannf = TRUE, nf = 2)
    ## S3 method for class 'pta'
    plot(x, xax = 1, yax = 2, option = 1:4, ...)
    ## S3 method for class 'pta'
    print(x, ...)

### Arguments

`X` | an object of class `ktab` where the arrays have 1) the same dimensions 2) the same names for columns 3) the same column weightings
`scannf` | a logical value indicating whether the eigenvalues bar plot should be displayed
`nf` | if scannf FALSE, an integer indicating the number of kept axes
`x` | an object of class 'pta'
`xax, yax` | the numbers of the x-axis and the y-axis
`option` | an integer between 1 and 4, otherwise the 4 components of the plot are displayed
`...` | further arguments passed to or from other methods

### Value

returns a list of class 'pta', sub-class of 'dudi' containing :

`RV` | a matrix with the all RV coefficients
`RV.eig` | a numeric vector with the all eigenvalues (interstructure)
`RV.coo` | a data frame with the scores of the arrays
`tab.names` | a vector of characters with the array names
`nf` | an integer indicating the number of kept axes
`rank` | an integer indicating the rank of the studied matrix
`tabw` | a numeric vector with the array weights
`cw` | a numeric vector with the column weights
`lw` | a numeric vector with the row weights
`eig` | a numeric vector with the all eigenvalues (compromis)
`cos2` | a numeric vector with the cos² between compromise and arrays
`tab` | a data frame with the modified array
`li` | a data frame with the row coordinates
`l1` | a data frame with the row normed scores
`co` | a data frame with the column coordinates
`c1` | a data frame with the column normed scores
`Tli` | a data frame with the row coordinates (each table)
`Tco` | a data frame with the column coordinates (each table)
`Tcomp` | a data frame with the principal components (each table)
`Tax` | a data frame with the principal axes (each table)
`TL` | a data frame with the factors for Tli
`TC` | a data frame with the factors for Tco
`T4` | a data frame with the factors for Tax and Tcomp

### Author(s)

Pierre Bady pierre.bady@univ-lyon1.fr
Anne-Béatrice Dufour anne-beatrice.dufour@univ-lyon1.fr

### References

Blanc, L., Chessel, D. and Dolédec, S. (1998) Etude de la stabilité temporelle des structures spatiales par Analyse d'une série de tableaux faunistiques totalement appariés. Bulletin Français de la Pêche et de la Pisciculture, 348, 1–21.
Thioulouse, J., and D. Chessel. 1987. Les analyses multi-tableaux en écologie factorielle. I De la typologie d'état à la typologie de fonctionnement par l'analyse triadique. Acta Oecologica, Oecologia Generalis, 8, 463–480.

### Examples

    data(meaudret)
    wit1 <- withinpca(meaudret$env, meaudret$design$season, scan = FALSE, scal = "partial")
    kta1 <- ktab.within(wit1, colnames = rep(c("S1", "S2", "S3", "S4", "S5"), 4))
    kta2 <- t(kta1)
    pta1 <- pta(kta2, scann = FALSE)
    pta1
    plot(pta1)

[Package ade4 version 1.7-17 Index]