Hi Hans,
you could try using the FSL segmentation tools to generate a white matter
mask, then plugging that into our stream to build surfaces. It will take a
bit of work, but if the data is good enough quality it will be doable. What
kind of T2 data do you have?
cheers,
Bruce
On Tue, 2 Dec
2008, Hans Odd wrote:
> Steve,
>
> thanks for replying - I'm not sure if you're familiar with Freesurfer, but they include a cortical brain atlas that divides the cortical surface into specific areas such as right anterior cingulate cortex etc.
>
> My specific need is to coregister this atlas with my T2 data, so that I can follow white matter tracts and plot termination points to the cortical surface
>
> Hans
>
>
> --- On Tue, 12/2/08, Steve Smith <[log in to unmask]> wrote:
>
>> From: Steve Smith <[log in to unmask]>
>> Subject: Re: [FSL] brain atlases
>> To: [log in to unmask]
>> Date: Tuesday, December 2, 2008, 12:50 PM
>> Hi - its not clear exactly what kind of atlas you are asking
>> about?
>> Cheers.
>>
>>
>> On 2 Dec 2008, at 09:16, Hans Odd wrote:
>>
>>> Dear FSL team,
>>>
>>> I was recommended to use FSL by the team supporting
>> Freesurfer, because my research data is T2 weighted
>> MRI's
>>>
>>> I've download FSL and am beginning to tinker with
>> it - there are a few questions that don't appear to be
>> answered on the FAQ page.
>>>
>>> My research project concerns white matter tracks and
>> ageing. I wish to match WMT's to the cortical surface
>> anatomy - does FSL include such atlases in its package or
>> can I import an atlas?
>>>
>>> Many thanks for any help you can shed on this matter,
>>>
>>> Hans Odd
>>>
>>
>>
>> ---------------------------------------------------------------------------
>> 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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