Hi - the location relative to the mean_FA is fine - it's just slightly
inaccurate relative to the MNI152.
Cheers.
On 22 Jun 2008, at 14:49, Naama Barnea-Goraly wrote:
> Thank you. So what does this mean in terms of interpretation of
> results?. Can I trust results location as seen on the mean_FA image?
>
> Thanks,
>
> Naama
>
> On Jun 21, 2008, at 4:38 PM, Steve Smith wrote:
>
>> Hi - this is because in that old original version of TBSS the
>> registration to standard space was from the most typical subject to
>> standard space, affine-only - so that's not surprising - and this
>> is fine, the only downside being that it's a little harder to
>> exactly interpret the exact positions in standard space. Later
>> versions of TBSS (e.g. in FSL 4.0) by default register all subjects
>> directly to standard space and so this issue is greatly improved.
>>
>> Cheers.
>>
>>
>> On 21 Jun 2008, at 07:12, Naama Barnea-Goraly wrote:
>>
>>>
>>>
>>> Dear FSL experts,
>>>
>>> I am running a TBSS study using FSL3.3 (for consistency with a
>>> previous analysis), but the skeleton generated is not perfectly
>>> aligned with the MNI template; mostly around the splenium. The
>>> skeleton looks fine on the mean_FA image, but not on the MNI
>>> template (see image).
>>> I have been using flirt to improve registration as per previous
>>> communications of several people on the list and this is my best
>>> result.
>>>
>>> Is there anything I can do to improve image transformation to MNI?
>>>
>>> Thank you for your help,
>>>
>>> Naama
>>>
>>> <CC_image.tif.zip>
>>>
>>>
>>>
>>> Naama Barnea-Goraly M.D.
>>> Instructor
>>> Center for Interdisciplinary Brain Sciences Research
>>> Stanford University Division of Child and Adolescent Psychiatry
>>> 401 Quarry Rd. MC 5795
>>> Stanford University School of Medicine
>>> Stanford, CA 94305-5795
>>> Phone: (650) 736-1874, fax: (650) 724-4794
>>>
>>>
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>>>
>>>
>>
>>
>> ---------------------------------------------------------------------------
>> Stephen M. Smith, Professor of Biomedical Engineering
>> Associate Director, Oxford University FMRIB Centre
>>
>> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
>> +44 (0) 1865 222726 (fax 222717)
>> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
>> ---------------------------------------------------------------------------
>
---------------------------------------------------------------------------
Stephen M. Smith, Professor of Biomedical Engineering
Associate Director, Oxford University FMRIB Centre
FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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