FSL describes the shape analysis as "Vertex Analysis," which is a section in the User Guide. There is a simple preparation step, and then there is running the model, which is a single step but with several options.
Combining individual files: concat_bvars
In a terminal, navigate to the directory with all the bvars files, e.g., [user@localhost temp]$ cd /mnt/hgfs/LinuxShare/temp
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The files will be ordered alphabetically; knowing the order is required for the later steps (specifically, creating the design matrix).
Design Matrix
Click to example of two-group, 96 subject design matrix file.
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