In this case, you should not need to do a registration because the two
volumes share scanner space.
doug
Martin Reuter wrote:
> Hi,
>
> also I would suggest to give mri_robust_register a try for the
> registration. It is very accurate especially in cases with differences
> in the images (jaw movement...). It can detect outlier voxel and remove
> them from the registration.
>
> Oh, and why do you use the T1.mgz? The norm.mgz is only brain and the
> resulting registrations will be more accurate.
>
> Cheers, Martin
>
> On Tue, 2009-08-18 at 10:50 -0400, Bruce Fischl wrote:
>
>> you can change the orientation without reslicing, but if the voxel
>> dimensions of the 001.mgz are different from the orig.mgz then it will
>> have to reslice. I don't see why you need to at all though - both contain
>> ras2vox xforms that tell you how to initialize a transform.
>>
>> cheers
>> Bruce
>>
>>
>> On Tue, 18 Aug 2009, Renske de Boer wrote:
>>
>>
>>> Hi Bruce,
>>>
>>> Thank you for your answer. What I forgot to mention is that I will not be
>>> using FreeSurfer for the registration. We have our own registration method
>>> that I prefer in this case.
>>> I thought of using the -rl switch in mri_convert but as you mentioned this
>>> will also resample the data. Do I understand correctly that it is not
>>> possible to change the orientation in FreeSurfer without resampling?
>>>
>>> Renske
>>>
>>>
>>> Bruce Fischl wrote:
>>>
>>>> Hi Renske,
>>>>
>>>> you can use the -rl mri/orig/001.mgz switch in mri_convert ("reslice
>>>> like"). Note that depending on the resolution etc. of the 001.mgz it may
>>>> do
>>>> an additional interpolation. You shouldn't need to do this though for
>>>> registration as it should read this information from the header. Martin
>>>> Reuter (ccd) has some very nice tools for this kind of thing.
>>>>
>>>> cheers,
>>>> Bruce
>>>>
>>>>
>>>> On Tue, 18 Aug 2009, Renske de Boer wrote:
>>>>
>>>>
>>>>> Hi,
>>>>>
>>>>> I would like to register a FreeSurfer segmentation (or actually the
>>>>> corresponding T1 image) to another scan of the same subject. In order to
>>>>> perform this registration, the mri/T1.mgz file needs to have the same
>>>>> orientation as the original T1 scan (mri/orig/001.mgz). Resampling is
>>>>> not necessary since I want to prevent multiple interpolations and
>>>>> resampling is already necessary in the registration/transformation.
>>>>>
>>>>> How can I convert mri/T1.mgz to the same orientation as the original T1
>>>>> scan?
>>>>>
>>>>> Thanks!
>>>>> Renske
>>>>>
>>>>>
>>>>>
>>>
>
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>
>
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
In order to help us help you, please follow the steps in:
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