wca.coinertia function

Within-class coinertia analysis

Performs a within-class analysis after a coinertia analysis

## S3 method for class 'coinertia'
wca(x, fac, scannf = TRUE, nf = 2, ...)

Arguments

• x: a coinertia analysis (object of class coinertia ) obtained by the function coinertia
• fac: a factor partitioning the rows in classes
• scannf: a logical value indicating whether the eigenvalues barplot should be displayed
• nf: if scannf FALSE, an integer indicating the number of kept axes
• ...: further arguments passed to or from other methods

Returns

An object of the class witcoi. Outputs are described by the print function

Details

This analysis is equivalent to do a within-class analysis on each initial dudi, and a coinertia analysis on the two within analyses. This function returns additional outputs for the interpretation.

References

Franquet E., Doledec S., and Chessel D. (1995) Using multivariate analyses for separating spatial and temporal effects within species-environment relationships. Hydrobiologia, 300 , 425--431.

Note

To avoid conflict names with the base:::within function, the function within is now deprecated and removed. To be consistent, the withincoinertia function is also deprecated and is replaced by the method wca.coinertia of the generic wca function.

Author(s)

Stéphane Dray stephane.dray@univ-lyon1.fr and Jean Thioulouse jean.thioulouse@univ-lyon1.fr

See Also

coinertia, wca

Examples

data(meaudret)
pca1 <- dudi.pca(meaudret$env, scan = FALSE, nf = 4)
pca2 <- dudi.pca(meaudret$spe, scal = FALSE, scan = FALSE, nf = 4)
   
wit1 <- wca(pca1, meaudret$design$site, scan = FALSE, nf = 2)
wit2 <- wca(pca2, meaudret$design$site, scan = FALSE, nf = 2)
coiw <- coinertia(wit1, wit2, scannf = FALSE)

coi <- coinertia(pca1, pca2, scannf = FALSE, nf = 3)
coi.w <- wca(coi, meaudret$design$site, scannf = FALSE)
## coiw and coi.w are equivalent

plot(coi.w)