[pymvpa] searchlight analysis

[Pegah Kassraian Fard]

That would be great.

- Files (whole brain - not yet masked) are here
<https://www.dropbox.com/sh/6qnrt2l2othc83g/AADBpc-eJSK5893Vrz_A8BS1a?dl=0>

- Targets/labels are in the labels.mat file, it is binary classification,
so one classes' samples are labeled by "1", the other classes by "2", the
"7" are just the head movement parameters and can be ignored for
classification

- I have included a struct image of the subject (subject2_struct.nii), as
well as a mask for primary sensory cortex (S1_mask.nii)

I was attempting to reproduce this:

http://www.pymvpa.org/examples/searchlight.html

including the plots, but my highest accuracies (1-error) were 1. outside of
the brain:)) 2. I was not sure what the necessary background files were (I
tried to guess and use similar ones I found elsewhere, but there was a
dimension mismatch - is there a resampling method in the toolbox to match
the dimensions?)

Many thanks, let me know if I can provide my (buggy?) script
Pegah



On Fri, Sep 8, 2017 at 12:07 AM, Yaroslav Halchenko <yoh at onerussian.com>
wrote:

> Quick one... Just give a list of files to fmri_dataset pointing to those
> 3d volumes, and give a list of targets of matching length
>
>
> On September 7, 2017 4:09:19 PM EDT, Pegah Kassraian Fard <
> pegahkf at gmail.com> wrote:
>>
>> Hi,
>>
>> I am new to searchlight analysis, and would appreciate some feedback:
>>
>> - Normally, I perform classification based on beta-files. Is it possible
>> to perform the searchlight on these images, or is it required to input the
>> 4-D epi-volumes?
>>
>> - If the later is true, how are the names/onsets defined as an input for
>> the searchlight?
>>
>> Many thanks,
>> Pegah
>>
>
> --
> Sent from a phone which beats iPhone.
>
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