Retrieve beta diversity (pairwise similarity) scores

Commands in mothur
1

Hi

I am wondering how to retrieve the pairwise similarity scores that Heatmap.sim() used to draw the heatmaps? It seems Heatmap.sim() can only output svg files, is there a similar function that we can use to output the data into text files?

Thanks

I-Hsuan

2

You can use dist.shared or summary.shared to get the distance values (1-similarity)

Pat