The upload number is 411811. The DTI and the structural image are indeed in a different convention.
Cheers
Alex
On Thu, 1 Jul 2010 16:36:10 +0100
Saad Jbabdi <[log in to unmask]> wrote:
> 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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