row weights in co-inertia

From: Frank Dziock (frank.dziock@ufz.de)
Date: Tue Dec 21 2004 - 13:55:03 MET

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    Dear ADE-colleagues,

    I am trying to perform a co-inertia in ADE-4 with R 2.0.0 based on a Fuzzy CA of 155 species and 11 trait variables with 59 trait categories. The other datatable has 155 species and 37 sites.

    FCA was performed on the traits-species table (traits) with traits in columns and species in lines/rows
    CA was performed on the transposed species-sites table (artentranspo) with sites in columns and species in lines/rows

    ######################
    blocks <- c(4,11,3,4,3,4,4,7,3,9,7) ##no. of categories per variable
    traits <- read.table ("c:/1 Daten/Sachsen-Anhalt/Ergebnisse/Analysen/traits.txt", sep="\t")

    artentranspo<-data.frame(t(arten))
    ca<-dudi.coa(artentranspo, scan=F, nf=2)
    traits2<-prep.fuzzy.var(traits, blocks, row.w=ca$lw)  ## new FCA with row weights ca$lw from the CA

    fca <- dudi.fca(traits2, scann=F, nf=4)
    coinert<-coinertia(fca,ca,scannf=F, nf=4)
    plot(coinert)
    randtest.coinertia(coinert,nrepet=9999)
    ######################

    In the manual (p. 52) it says that in "dudi" cw are row weights, but this doesnt work for my coinertia, so I took "lw", which is said to be column weights, which I doubt!?

    The co-inertia seems to have worked with my data and using ca$li as row weights, because I got a summary plot.

    But in the Monte-Carlo test an error occured "non-equal row weights" with eitther setting "fixed=0" or 1 or 2.

    I would be delighted if someone could help me by telling me what is "lw" and "cw" and maybe a hint on what went wrong in the Monte-Carlo test.

    Thanks very much in advance,

    With best wishes from sunny Leipzig,

    Frank


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    _________________________________________________________________________________________________  

    Dr. Frank Dziock
    Umweltforschungszentrum Leipzig-Halle GmbH - Centre for Environmental Research Leipzig-Halle 
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