I am doing analyses on a dataset of parasite species present or absent in bee samples. I have a matrix with 0/1 for each sample and each parasite species. Since a lot of samples do not have any parasite species, a lot of the rows are all zeroes.
I want to make a distance matrix from this, to compute Mantel correlations with matrices with environmental data, but i'm not sure which distance matrix to choose.
I was using the vegdist function in R for this:
pardist = vegdist(parasites, method = "euclidian", binary=TRUE),
but now i discover there is also a "binomial" method. If i use this one, my results are very different.
I cannot find much information on the difference between the two. Can someone help to explain?
