Hi all, I'm trying to implement permutation testing with searchlights and, after going through the manual and the mailing list archives, I'm still not sure how to do it.
According to this thread http://lists.alioth.debian.org/pipermail/pkg-exppsy-pymvpa/2012q1/002071.html, the fastest way to get searchlight permutations is to use the GNB searchlight; otherwise it takes so long as to be impractical. However, when trying to set up the GNB searchlight with a null_dist, as shown in here https://github.com/PyMVPA/PyMVPA/blob/master/mvpa2/tests/test_usecases.py#L168, I get a NotImplementedError: "GNBSearchlight does not yet support partitions altering the target (e.g. permutators)", as warned about on the documentation page for GNB searchlight and mentioned in this thread http://lists.alioth.debian.org/pipermail/pkg-exppsy-pymvpa/2012q4/002304.html . However, if I can't use an attribute permutator with the GNB searchlight, how can I use it to run permutation tests and get a null probability? What am I missing? Additionally, and this is a side note, is there any way to pass the null distribution from the searchlight's null_dist attribute to the results dataset? Or should I just give up on that, because trying to save the distribution for each searchlight would result in a huge file? Thanks, Bill
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