yep, that's what we thought! we'll find out if you upload the data and the FLIRT transform :)
Saad.
On 1 Jul 2010, at 16:33, Matt Glasser wrote:
> Are your original diffusion images in a different (i.e. neurological or
> radiological) convention than your structural images? Perhaps vecreg is not
> yet able to handle this conversion.
>
> Peace,
>
> Matt.
>
> -----Original Message-----
> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf
> Of Alexander Opitz
> Sent: Thursday, July 01, 2010 9:15 AM
> To: [log in to unmask]
> Subject: Re: [FSL] vecreg problem
>
> Hi Stam
>
> the original dti_vectors look fine in FSLView
>
> Cheers ,
> Alex
>
> On Thu, 1 Jul 2010 15:10:49 +0100
> Stamatios Sotiropoulos <[log in to unmask]> wrote:
>> Hi Alex,
>>
>> do the original dti vectors (dti_V1) look OK in FSLview or they are
> flipped as well?
>>
>> Cheers,
>> Stam
>>
>>
>>
>> On 1 Jul 2010, at 14:54, Alexander Opitz wrote:
>>
>>> Hi
>>> I got a problem with the vector registration tool.
>>>
>>> I registered my FA image (128 x 128 x 72 voxels) to my structural image
> (256 x 256 x 256 voxels) using FLIRT and FNIRT. Then I used the vector
> registration tool vecreg (version 1.1) to transform the V1 image to
> structural space. The transformed color FA image looks fine in FSLView
> however looking at the orientation of the lines in the V1_reg at the corpus
> callosum I noticed that their orientation was flipped. This happened both
> using a linear and a nonlinear transformation. As the correct direction
> information is important for me I am wondering if I made a mistake or if
> there is a bug in the vecreg tool.
>>>
>>> Here are my commands:
>>>
>>> vecreg -i dti_V1.nii.gz -o V1_reg.nii.gz -r struct.nii.gz -t
> fa2struct.mat
>>>
>>> vecreg -i dti_V1.nii.gz -o V1_reg.nii.gz -r struct.nii.gz -w
> fa2struct_warp.nii.gz
>>>
>>> Cheers
>>> Alex
>>>
>
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
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