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Prism 5 Help - Prism 5 does not come with manuals. Instead it has a very comprehensive Help system, that includes both information on using the program as well as help choosing and interpreting analyses, and detailed explanations of each built-in equation.
Prism 4 manuals - These four books/manuals come with Prism 4, and are freely available as pdf files. One set of manuals serves for both Windows and Mac users.
Intuitive Biostatistics - Straightforward statistics text written by GraphPad's Harvey Motulsky.
Fitting Models to Biological Data using Linear and Nonlinear Regression - This book comes with Prism 4, but about 90% of it is general guidance on curve fitting.
Other manuals - Manuals for InStat, StatMate and prior versions of Prism
Presentations. - PowerPoint slides of presentations given by GraphPad's Harvey Motulsky.