Hierarchical clustering: JMP & R disagree
When I cluster the same exact dataset in JMP and in R, using Ward's method, I get results that are non-identical. R provides two options (ward.D and ward.D2), wherein the latter squares the values in the distance matrix before clustering them. According to Murtagh & Legendre (2014), that's what JMP does too. But even when I specify method="ward.D2" in R, the output I get is non-trivially differe...