Ah! I think I see what it is then… I'm likely feeding something like -1s and 1s (only!) into the searchlight!
I'll try out your suggestions and reply shortly (just stepped away from the computer)… thanks again! On Thu, Oct 20, 2011 at 3:27 PM, Yaroslav Halchenko <[email protected]> wrote: > > > On Thu, 20 Oct 2011, Mike E. Klein wrote: >> Thanks for the quick response. I actually don't know how to crossplot… > > should be as easy as > > import pylab as pl # not needed if you did import from mvpa.suite > pl.plot(np.ravel(s1_map), np.ravel(s2_map), '.') > pl.show() # your might not even need this one > > alternatively -- here is a helper I hacked up/use -- probably should > place it under PyMVPA (see attached) -- just give it two nifti files ;-) > >> histrograms are output from MRICron. > > pl.hist > > should become your friend > >> I've tried to follow the plotting >> from the searchlight example from the manual, but haven't figured out >> to get my searchlight data in there (from nifti) without running the >> entire multi-hour script first. > > just load using fmri_dataset with the original mask ;) > >> As far as ds.summary, I've pasted below. It has been run averaged, but >> not detrended or zscored. > > if I were you I would have detrended, zscored and only then averaged! > > if averaging was done across multiple conditions spread through the > 'run' detrending might be detremental > > and I think I might know where other catch could be -- if you > zscore such a dataset as you have (2 samples total per chunk) with > zscoring per chunk -- do you know what values would you get? ;) > > so -- how was zscoring done? > > what about ds.summary() right before you fed it into searchlight? > > -- > =------------------------------------------------------------------= > Keep in touch www.onerussian.com > Yaroslav Halchenko www.ohloh.net/accounts/yarikoptic > > -----BEGIN PGP SIGNATURE----- > Version: GnuPG v1.4.10 (GNU/Linux) > > iEYEARECAAYFAk6gdiYACgkQjRFFY3XAJMh+SgCgmtF4vTuaf9v65TZSH8QMNDFH > FiMAn1z0WC1XY/F3UVBj2ZtSJvcrgL1E > =qTgM > -----END PGP SIGNATURE----- > > _______________________________________________ > Pkg-ExpPsy-PyMVPA mailing list > [email protected] > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa > _______________________________________________ Pkg-ExpPsy-PyMVPA mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa
