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The following gives background information.
Running Analysis
Randomize is a combination of "Estimate" and Results" in SPM in that it estimates a model and does a statistical test on a contrast. The inputs (analysis and mask) are the outputs from the previous vertex analysis step. Just as in SPM "Results" where we put in statistical tests and thresholds, we do the same with randomise (see here for initial details). The approach is to to look at bi-directional effects (--fonly), after de-meaning the data (-D). See guide (see Running vertex analysis) for details.
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* At some point, this could also run without a threshold; however, it usually gives an error ("F missing non-optional argument" or similar).
Older examples
Refer to table in randomise guide for files that are created (randomise User Guide).
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