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Calculates the number of permutations suitable for testing Multiscale Codependence Analysis.
minpermute(alpha, nbtest, margin = 1, ru = 3)
The minimum number of permutation to be used for
permute.cdp
.
The familywise type I error threshold allowable for the complete analysis.
The number of test performed (the number of eigenvectors in the
`mem` object in the case of MCA
).
A margin allowed for the number of permutation. Default value: 1.
The magnitude of the round-up to apply to the number of permutations.
tools:::Rd_package_author("codep") Maintainer: tools:::Rd_package_maintainer("codep")
This function calculate the number of permutations for use with
permute.cdp
. Argument margin
allows to apply a safe
margin to the number of permutations. The minimal suitable value for this
parameter is 1. Argument ru
allows one to round-up the number of
permutations. A value of 0 implies no round-up, a value of 1 a round-up to
the next ten, 2 a round-up to the next hundred, and so on. Function
minpermute
is called internally by permute.cdp
in
case permute = NA
. In that case, the margin is set to 10
(margin = 10
) and the outcome is rounded-up to the next thousand
(ru = 3
). This function is meant for users that wish to apply their
own margins and round-up factors to calculate the number of permutations for
use with permute.cdp
.
Guénard, G., Legendre, P., Boisclair, D., and Bilodeau, M. 2010. Multiscale codependence analysis: an integrated approach to analyse relationships across scales. Ecology 91: 2952-2964
permute.cdp
## For a 5\% threshold under 50 tests.
minpermute(alpha = 0.05, nbtest=50)
## Allowing more margin (implies more computation time).
minpermute(alpha = 0.05, nbtest=50, margin=10, ru=3)
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