> I did custom pre-processing, so, of course, I normalized functional images
> with normalize fiunction of SPM.
>
> So, the coordinates I see in activations are MNI coordinates?
If you spatially normalised the images by matching them to one of the
MNI-space template images supplied with SPM, then they should be in
MNI space, with co-ordinates in MNI space.
> In MNI space, are positive values of x coordinate related to right
> emisphere?
They should be.
> I'm asking this, because, for example, for right hand task, I see
> more activations in right emisphere (positive value of x coordinate). Is it
> possible?
This will depend on the file format of the original images. If you
have used NIfTI throughout, then the left and right sides should not
get mixed up. If they do come out wrong, then this would indicate a
bug (probably one of mine) somewhere in the code.
If the original data were the old ANALYZE format, as would be used
with older versions of SPM (before SPM5), then there is a chance of
the laterality getting mixed up. However, if you converted your
original DICOM files using software that knows about NIfTI (and the
way it saves orientations in the headers), and all image manipulations
were with software that is NIfTI compatible, then there should not be
a problem.
Note that the slices option of the stats results sometimes displays
the left side of the brain on the right side of the image. However,
the x coordinates reported should be correct.
Best regards,
-John
On 11 March 2013 20:08, Luigi Pavone <[log in to unmask]> wrote:
> Thanks Dr. Lee, thanks Dr. Ashburner., thanks Dr. Hammers.
>
> I did custom pre-processing, so, of course, I normalized functional images
> with normalize fiunction of SPM.
>
> So, the coordinates I see in activations are MNI coordinates?
>
> In MNI space, are positive values of x coordinate related to right
> emisphere? I'm asking this, because, for example, for right hand task, I see
> more activations in right emisphere (positive value of x coordinate). Is it
> possible?
>
> Thanks,
>
> Luigi
>
>
> 2013/3/11 James Lee <[log in to unmask]>
>>
>> Luigi,
>>
>> If you want the coordinates in Talairach space you can use mni2tal.
>> You may want to consider using icbm2tal, which is evidently more
>> accurate. See the comments at http://www.brainmap.org/icbm2tal.
>>
>> Jim
>>
>> On 3/11/13, John Ashburner <[log in to unmask]> wrote:
>> > If your data are spatially normalised to MNI space, then the reported
>> > coordinates will also be in MNI space.
>> > Best regards,
>> > -John
>> >
>> >
>> > On 11 March 2013 16:05, Luigi Pavone <[log in to unmask]> wrote:
>> >> Hi to all.
>> >>
>> >> I did fMRI analysis with spm v.8. Now I need to translate coordinates
>> >> coming
>> >> from fMRI results (button "whole brain" in panels "p value") in
>> >> tailarach
>> >> coordinates.(please see tha attached file)
>> >>
>> >> Are they MNI coordinates, so i can use mni2tal m file?
>> >>
>> >> Thanks,
>> >>
>> >> Luigi
>> >
>>
>
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