Dear Kris,
What kind of analysis are you doing?
If you are doing analysis of a single subject, then there is no problem as this is the expected behaviour.
It does the analysis in the native space (which means that filtered_func_data will be in the native space) and also creates registrations so that you can transform the results for viewing or future analysis. However, it is only if you are doing a group analysis that it needs to create filtered_func_data in the standard space.
All the best,
Mark
On 31 Mar 2014, at 22:59, Kris Farrant <[log in to unmask]> wrote:
> Dear FSL experts,
>
> I am currently running into a registration problem when registering my resting state data. My filtered_func_data is not transforming into standard space but stays in the individual space. I have played around with all of the different settings but still coming up short.
>
> When preprocessing my data I input my main structural image and keep the standard space image as the default MNI152 T1 2mm. I keep normal search setting and BBR for my functional data. I should point out that I do not have any high res images to input in the expanded functional image. When I click on go the data is processed fine and no errors are reported however the functional images are in the wrong space (see below):
>
> sizeof_hdr 348
> data_type FLOAT32
> dim0 4
> dim1 64
> dim2 80
> dim3 33
> dim4 180
> dim5 1
> dim6 1
> dim7 1
> vox_units mm
>
>
> The issue comes when I try to extract the mean time series of ROIs that i defined in the MNI 152 T1 2mm standard space. The dimensions for that are #91 #109 #91. The two files are in separate spaces.
>
> sizeof_hdr 348
> data_type FLOAT32
> dim0 3
> dim1 91
> dim2 109
> dim3 91
> dim4 1
> dim5 1
> dim6 1
> dim7 1
> vox_units mm
>
> How can I get my functional images into the standard space as are the ROIs? Any help on this would be a massive help.
>
>
> Many thanks in advance,
>
> Kris
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