The "Vertex Analysis: requires you to prepare two sets of files: the individual segmented structures combined into one file, and a design matrix to indicate which file belongs to which groupand t and f contrasts saved as a set of files.
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Combining individual files: concat_bvars
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.../LinuxShare/FIRST/ID99N20G2/designs/2group_covage/
.../LinuxShare/FIRST/ID99N20G2/designs/1group_covagesex/
.../LinuxShare/FIRST/ID99N20G2/designs/correlationage/
.../LinuxShare/FIRST/ID99N20G2/designs/correlationage_covsex/
.../LinuxShare/FIRST/ID99N20G2/designs/regressionageAHI_covsex/
2) Open a terminal in this "design folder"
3) Open Glm
Either start from the FSL GUI (if so, open fsl in the design folder), or from a terminal "cd" to the directory, and type Glm (case sensitive).
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You will copy the design folder, including all the files, to subfolders of each structure you analyze.
Tip: Glm from FSL GUI
Type "fsl" to start the FSL GUI, click "Misc " then "GLM Setup".
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