I want to use Moran I index for spatial autocorrelation. My input files are two matrices; (1) distance matrice of individuals based from a UPGMA tree and (2) Geographic distances between individuals
So I have two questions
(1) since I have two matrices, do I place them in one input file or separate input files?
(2) Whenever I load it up in SPAGEDI, it always produce an error message on how I formatted the input file. I followed the user manual for inputting matrices in SPAGEDI however it still gives me an error message.
I hope you can help me on this endeavor. Thanks!!
Hi,
If you have already matrices of spatial and genetic distances, SPAGeDi is not really useful to analyse them. You could make a Mantel test or compute average genetic distances for a set of spatial distance intervals using for example scripts in R. SPAGeDi would be useful if you have raw genetic data of individuals (with spatial coordinates) from which you'd like to compute genetic distances.
all the best,
Olivier
Dear Olivier,
I did use Mantel test in our recent studies, and I am running these now, but I have been recently "suppressed" with a critical paper by Legendre, Fortin & Borcard (Methods in Ecology and Evolution 2015, 6, 1239–1247). Are there arguments still to use Mantel test after this study?
Many thanks in advance,
Evgeny
Keep the coordinates (not distances) in the main data. It should work.
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