Thank you for your response! I think I have it installed properly now.

The documentation I have is named user-guide-r3.0.pdf, in it there is mention of a library of standard pipelines for preprocessing. Are these available somewhere in the jar file or can they be downloaded elsewhere?

Additionally, I am interested in the laminar analysis. I've read the Waehnert paper, but I was wondering if there was any further documentation regarding how to use the software for this type of analysis.

Thank you for your help,

Maggie