Hi. I'm trying to decide the 'best' way to analyze my data.... Basically, I am interested in knowing if habitat type (binomial) of a population and/or distance between populations (ibd) is effecting genetic distances between populations. My genetic distances are pair-wise Fsts (an nxn matrix), and I have a vector of 0's and 1's for my habitat type descriptor. For looking at ibd, I have the raw lat/long data and a matrix of pair-wide geographic distances. I wanted to use adonis, but am unclear on how or if I could use my geo distance data. I know that for things like RDA you can use pcnm's of the distances, but since that only takes the positive eigenvalue-related eigenvectors and adonis takes all eigenvectors (I believe, at least in vegan), that seems, well, wrong. I'm thinking that just using the lat and long values is not what I'm looking for (not worried about a clinal effect). I saw that Pilot et al. 2006 used DISTLM (aprox. the pay money version of adonis?) to look at the significance of their environmental effects separately from a partial Mantel test to look at for significant IBD. I'd rather look at both simultaneously because that would make more sense, and I'd think should be possible. Any tips? Thanks, Ginnie
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