Using "Pearson correlation coefficient" in the 'Pdist' for the Clustergram function
15 views (last 30 days)
I am doing the Hierarchical cluster analysis. I constructed the dendrograms by the 'clustergram' using agglomerative average-linkage clustering. But I need to use 'pearson correlation coeffiecient' for the distance matric(the default distance matric is euclidean, there are other matric availdable as well), but I could not find the pearson correlation available in the 'PDist' function. Thanks for helping.
Scott Ronquist on 2 Nov 2020
The 'correlation' option for pdist uses the pearson correlation (documentation page here). So to use this metric to calculate the distance between columns in clustergram, you can call:
clustergram(..., "ColumnPDist", "correlation")
The same option is available for "RowPDist" as well.