and where do you get ground truth?
On Wed, 30 Dec 2009, Zhong Jidan wrote:
> Hi,
> I want to check the deformation accuracy of FreeSurfer in this way.. By
> calculating the deformation vectors' difference before and after mapping, I
> can know which part is registered better with the reference of the true
> ground.
>
> Thanks,
>
> Jidan
>
> On Tue, Dec 29, 2009 at 11:01 PM, Bruce Fischl
> <fis...@nmr.mgh.harvard.edu>wrote:
>
>> Hi Jidan,
>>
>> can you give us an idea of what your goal is. Lilla (ccd) does some of what
>> you want as part of her CVS processing stream.
>>
>> cheers,
>> Bruce
>>
>>
>>
>> On Tue, 29 Dec 2009, Zhong Jidan wrote:
>>
>> Hi Freesurfer experts,
>>>
>>> I have a 3D fiducial surface ('anatomical' surface configuration), based
>>> on this fiducial surface ,let's say, "template", I generated some
>>> simulated fiducial surface with some deformation, let's say "subject".
>>> So
>>> here I know the "deformation vectors" for each vertex between the template
>>> and the subject in the original 3D fiducial surface "space". Then I use
>>> FreeSurfer to generate the spheres and do spherical registration from
>>> those
>>> subjects to the template. I want to check how these " deformation vectors
>>> "
>>> I got from Freesurfer are different from my generated "deformation
>>> vectors".
>>> But the problem for me is, after Freesurfer registration, the "
>>> deformation
>>> vectors" is based on the spherical space. While my generated "deformation
>>> vectors" are in the 3d fiducial surface space, it's not comparible for
>>> these
>>> two vectors. I want to know whether I can put the deformed subject sphere
>>> back into the fiducial surface representation. In that way, I can
>>> calculate
>>> the difference in the fiducial space. If getting the deformed subject
>>> sphere into the fiducial surface space is not possible, could you give me
>>> some suggestions about how to calculate the difference of the deformation
>>> vectors which are not in the same space? Generating the deformation
>>> vectors in the spherical space is the last thing I want to do because you
>>> never know how it likes in the real fiducial surface representation.
>>>
>>>
>>> Thank you.
>>>
>>> Jidan
>>>
>>> On Mon, May 4, 2009 at 8:48 PM, Zhong Jidan <jid...@gmail.com> wrote:
>>>
>>> Hi,
>>>>
>>>> I have a question about the sphere registration. The registration of
>>>> surface is spherical registation, so the outpput of the surface is
>>>> also a sphere. When we have the inflated and smoothwm, we can convert
>>>> the surface into sphere using mris_sphere, but reversely, how to
>>>> convert the deformed sphere in the form of white surface or pial
>>>> surface?
>>>>
>>>> Also, if I want to use the surface between the white and pial surface
>>>> to do registration, do I need to make the sphere myself?
>>>>
>>>> Thanks,
>>>>
>>>>
>>>> --
>>>> Regards,
>>>>
>>>> Jidan
>>>>
>>>>
>>>
>>>
>>>
>>>
>
>
>
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