In that case create a batch file (.bat) with all your parameters set in it and then call batch from your code it will execute every thing provided in batch with all its settings and parameters. ( by the way in that link it is explained that how you call a program and pass parameters to it from vba. According to provided question description that fulfils the requirement of the asked question, or I am completely mis-understanding your question, sorry if later is true)
gCLUTO – An Interactive Clustering, Visualization, and Analysis System
found:
A stand-alone, command-line version of the various clustering algorithms in gCLUTO are also available in the CLUTO clustering library available at http://www.cs.umn.edu/˜cluto.
The link was broken when I tried it, but hopefully the authors provide a new one.