Mothur is a comprehensive suite of tools for microbial ecology community. It is initiated by Dr. Patrick Schloss and his software development team in the Department of Microbiology and Immunology at The University of Michigan. For more information, see Mothur-Wiki.
The heatmap.sim command generates a heat map from data provided in either a shared file, a phylip distance matrix, or a column distance matrix and a name file. For calc parameter choices see: https://www.mothur.org/wiki/Calculators
v.1.24.0: Updated to Mothur 1.33, added count parameter