ade4 (version 1.5-2)

rlq: RLQ analysis

Description

RLQ analysis performs a double inertia analysis of two arrays (R and Q) with a link expressed by a contingency table (L). The rows of L correspond to the rows of R and the columns of L correspond to the rows of Q.

Usage

rlq(dudiR, dudiL, dudiQ, scannf = TRUE, nf = 2)
## S3 method for class 'rlq':
print(x, ...)
## S3 method for class 'rlq':
plot(x, xax = 1, yax = 2, ...)
## S3 method for class 'rlq':
summary(object, ...)
## S3 method for class 'rlq':
randtest(xtest,nrepet = 999, ...)

Arguments

dudiR

a duality diagram providing from one of the functions dudi.hillsmith, dudi.pca, ...

dudiL

a duality diagram of the function dudi.coa

dudiQ

a duality diagram providing from one of the functions dudi.hillsmith, dudi.pca, ...

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 rlq object

xax

the column number for the x-axis

yax

the column number for the y-axis

object

an rlq object

xtest

an rlq object

nrepet

the number of permutations

...

further arguments passed to or from other methods

Value

• Returns a list of class 'dudi', sub-class 'rlq' containing:
• call
  call
• rank
  rank
• nf
  a numeric value indicating the number of kept axes
• RV
  a numeric value, the RV coefficient
• eig
  a numeric vector with all the eigenvalues
• lw
  a numeric vector with the rows weigths (crossed array)
• cw
  a numeric vector with the columns weigths (crossed array)
• tab
  a crossed array (CA)
• li
  R col = CA row: coordinates
• l1
  R col = CA row: normed scores
• co
  Q col = CA column: coordinates
• c1
  Q col = CA column: normed scores
• lR
  the row coordinates (R)
• mR
  the normed row scores (R)
• lQ
  the row coordinates (Q)
• mQ
  the normed row scores (Q)
• aR
  the axis onto co-inertia axis (R)
• aQ
  the axis onto co-inertia axis (Q)

WARNING

IMPORTANT : row weights for dudiR and dudiQ must be taken from dudiL.

References

Doledec, S., Chessel, D., ter Braak, C.J.F. and Champely, S. (1996) Matching species traits to environmental variables: a new three-table ordination method. Environmental and Ecological Statistics, 3, 143--166.

Dray, S., Pettorelli, N., Chessel, D. (2002) Matching data sets from two different spatial samplings. Journal of Vegetation Science, 13, 867--874.

See Also

coinertia

Examples

data(aviurba)
   coa1 <- dudi.coa(aviurba$fau, scannf = FALSE, nf = 2)
   dudimil <- dudi.hillsmith(aviurba$mil, scannf = FALSE, nf = 2, row.w = coa1$lw)
   duditrait <- dudi.hillsmith(aviurba$traits, scannf = FALSE, nf = 2, row.w = coa1$cw)
   rlq1 <- rlq(dudimil, coa1, duditrait, scannf = FALSE, nf = 2)
   plot(rlq1)
   summary(rlq1)
   randtest.rlq(rlq1)