thanks Matt
Bruce

On Mon, 2 Sep 2013, Glasser, Matthew wrote:

> Hi Bruce,
>
> Connectome Workbench commandline utilities can do this with FSL warp
> fields:
>
> wb_command -surface-apply-warpfield
>
> One needs to use the inverse warp as the <warpfield> argument and the
> forward warp as the -fnirt <forward-warp>.
>
> Peace,
>
> Matt.
>
> On 9/2/13 11:19 AM, "Bruce Fischl" <fischl@nmr.mgh.harvard.edu> wrote:
>
>> A veritable game of telephone! Thanks Jesper. Matt?
>>
>> On Mon, 2 Sep 2013, Jesper Andersson wrote:
>>
>>> Hi guys,
>>> I didn't think we had any tools for doing that, and said so much on the
>>> FSL
>>> mailbase. But apparently the WashU people has something that does just
>>> that
>>> for you. I think the best person to contact about the details is Matt
>>> Glasser.
>>>
>>> J
>>>
>>> On 2 Sep 2013, at 15:58, Saad Jbabdi <saad@FMRIB.OX.AC.UK>
>>>  wrote:
>>>
>>>       Hi In Probtrackx, this is done internally.
>>> If you just want to transform the vertex coordinates, then I think
>>> you'll need to play with the FNIRT source code - I've CC'd Jesper who
>>> knows better.
>>>
>>> Cheers,
>>> Saad
>>>
>>>
>>>
>>> On 2 Sep 2013, at 15:56, Bruce Fischl <fischl@nmr.mgh.harvard.edu>
>>> wrote:
>>>
>>>       you might check on the FSL list. I think I've seen some
>>>       traffic indicating that there are some tools for doing
>>>       this. I'l cc Saad as he might know
>>>
>>>       cheers
>>>       Bruce
>>>
>>>
>>>       On Mon, 2 Sep 2013, Douglas Greve wrote:
>>>
>>>             Hi Shani, I don't think you can apply a FNIRT
>>>             transform to a surface.
>>>             doug
>>>             On 9/2/13 8:20 AM, Shani Ben Amitay wrote:
>>>                  Dear freesurfer people,
>>>             Any idea whether I can apply transformation
>>>             that was calculated by fsl
>>>             fnirt on the white/pial surfaces calculated
>>>             using the freesurfer
>>>             stream?
>>>             Thanks!
>>>             Shani
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>>> --
>>> Saad Jbabdi
>>> University of Oxford, FMRIB Centre
>>>
>>> JR Hospital, Headington, OX3 9DU, UK
>>> (+44)1865-222466  (fax 717)
>>> www.ndcn.ox.ac.uk/team/researchers/saad-jbabdi
>>>
>>>
>>>
>
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