Hi!
Well, as far as I know:
- both are MNI standards
---- Colin27 is the MNI Colin27 single subject standard
---- fsaverage is MNI305

My problem with fsaverage was that I couldn't use the transformations made with the registration matrix after spmregister or bbregister, but I understand that it depends on the application. This is the reason I used the alternative way through Colin27 (since both are the same brain, one in 2mm and the other in 1mm, the registration matrix was almost 1).

Saying that, I understand that if you want the AAL .labels in fsaverage, you always could use mri_label2label in order to transform every label to fsaverage. 

I don't know what is the best method, maybe some expert in the list will be able to confirm this step, but it is definitely what I would do. If you are thinking using qdec or some other tool with fsaverage, I understand that you could always create your own average and transform the data there or create the data with mri_surf2surf for Colin27 (this is going to be our approach).

hope this helps!
Gari

On Tue, Oct 23, 2012 at 7:15 PM, MCLAREN, Donald <mclaren.donald@gmail.com> wrote:
How does the Colin 27 space differ from MNI space in terms of
freesurfer? Ideally, I'd want them to be useable with the standard FS
Average surface that is in MNI space.

Best Regards, Donald McLaren
=================
D.G. McLaren, Ph.D.
Research Fellow, Department of Neurology, Massachusetts General Hospital and
Harvard Medical School
Postdoctoral Research Fellow, GRECC, Bedford VA
Website: http://www.martinos.org/~mclaren
Office: (773) 406-2464
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On Tue, Oct 23, 2012 at 7:37 AM, Garikoitz Lerma-Usabiaga
<garikoitz@gmail.com> wrote:
> Hi Donald and everybody,
> I created AAL .mgh and .label-s in FS Colin27 space, if anybody is
> interested please drop me a line.
>
> best regards!
> Gari
>
> On Thu, Jul 12, 2012 at 11:12 PM, MCLAREN, Donald <mclaren.donald@gmail.com>
> wrote:
>>
>> Has anyone created an AAL label file for Freesurfer? I've done some
>> ROI analysis using AAL regions and want to display regional values on
>> the freesurfer surface.
>>
>> Best Regards, Donald McLaren
>> =================
>> D.G. McLaren, Ph.D.
>> Research Fellow, Department of Neurology, Massachusetts General Hospital
>> and
>> Harvard Medical School
>> Postdoctoral Research Fellow, GRECC, Bedford VA
>> Website: http://www.martinos.org/~mclaren
>> Office: (773) 406-2464
>> =====================
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