[pymvpa] pial and white surfaces for surface-based searchlight?

Maria Hakonen maria.hakonen at gmail.com
Mon Feb 1 11:30:55 UTC 2016


Thanks for the answer! I will try this when I get AFNI installed.


2016-01-31 19:02 GMT+02:00 Nick Oosterhof <n.n.oosterhof at googlemail.com>:

> > On 30 Jan 2016, at 17:09, Maria Hakonen <maria.hakonen at gmail.com> wrote:
> >
> > I would like to try surface-based searchlight. I have now reconstructed
> the inner (white) and outer (pial) surfaces using FreeSurfer autorecon-all.
> Is there any way to check if the surfaces are successfully reconstructed?
> The pymvpa2-prep-afni-surf script can be used for surface preprocessing.
> It requires working FreeSurfer, PyMVPA and AFNI packages. Run "suma -spec
> your_spec_file.spec" to visualize the surfaces in SUMA.
> It can be used to align surfaces to either an anatomical or functional
> volume. It can also resample surfaces to standard topology and merges left
> and right hemispheres. Recent versions of the script generate some QA
> images that may be useful to verify coregistration. But in the end, it's
> usually best to view surfaces together with an anatomical overlay to check
> whether the surfaces are properly reconstructed and aligned.
> Does that answer your question?
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