Hello Jonathan,
I suggested Jef the same thing, but there is something I don't
understand from what you wrote. As far as I remember there is no mean
image produced from realignment if you don't reslice during realign. I
needed the mean image during my analysis but it was impossible to
obtain it without reslicing (or by doing complicated calculations with
ImCalc).
Am I right on this?
Dorian.
2009/2/4 Jonathan Peelle <[log in to unmask]>:
> Hi Jef
>
> Because your subject's brain is the same size and shape in the
> structural and functional images, there is no "normalization"
> required, only moving one image around to match the other (i.e. rigid
> body registaration). This is done using the "coregister" option.
> Before doing so, you should realign all functional images using
> "realign", and written out the mean functional image. Then you can
> coregister the mean functional to that subject's structural image.
> Specify the mean functional as the reference image (you want that to
> remain stationary), and the structural image as the source image.
> There is no need to reslice, as the image headers will contain the
> updated location. When you're done use checkReg to select both
> volumes and make sure they are indeed lined up in a reasonable way.
>
> Hope this helps,
>
> Jonathan
>
> On Wed, Feb 4, 2009 at 4:50 PM, Jef West <[log in to unmask]> wrote:
>> hello
>>
>> i am attempting to conduct a single-subject analysis and i need to
>> coregister and normalize an individual's mean fmri volume to the
>> individual's smri volumes. therefore, i do not need to normalize to the
>> templates in spm5, but to the individual's smri volume.
>>
>> i would greatly appreciate any advice on how to normalize to the
>> individual's smri and not the standard templates, since only one person is
>> being analyzed. i want to ultimately superimpose the mean fmri onto their
>> smri, to determine the location to apply tms. any suggestions on these
>> matters would be greatly appreciated.
>>
>> j
>>
>
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