Hi Mark:
One question just come up to me based on your email as below, I think my situation is a little similar to fMRI registration. For example, we still consider the within-subject registration: in fMRI, we need to register EPI images to the structure images. In my case, I need to register CBF (the resolution looks like EPI images) maps to structure images. I think I can use the registration scheme as fMRI does. So I am wondering how to register EPI to structure images in fMRI within-subject?
You mentioned "It is more usual to use an image that is already aligned (an example functional or the b=0 weighting diffusion image) for the registrations and then transform these other images using the spatial transformation found by the previous registration." Could you explain this a little more with an example of fMRI registration? (You mean need an aligned EPI image? How to get this)
Best Regards,
Ping
----------------------------------------
> Date: Mon, 17 Dec 2007 10:07:03 +0000
> From: [log in to unmask]
> Subject: Re: [FSL] non-linear registration
> To: [log in to unmask]
>
> Just to add to this:
> If you are trying to get registrations within-subject then you
> probably don't want to use
> non-linear registration unless you are expecting substantial
> distortions. For the
> within-subject case, 6 dof should be the *correct* degrees-of-freedom
> to use, which
> can be done with flirt.
>
> Can you describe more fully in what way that are "not good".
> Note that you can only successfully register images that show the
> same structures
> (albeit with different contrasts). So registering a CBF map (or ADC)
> could be
> problematic. It is more usual to use an image that is already
> aligned (an example
> functional or the b=0 weighting diffusion image) for the
> registrations and then
> transform these other images using the spatial transformation found
> by the
> previous registration.
>
> I hope this is helpful.
> All the best,
> Mark
>
>
>
> On 17 Dec 2007, at 09:56, Steve Smith wrote:
>
>> Hi - FSL 4.0 includes the IRTK nonlinear registration tool; see the
>> TBSS scripts for example usage. However you're on your own wrt
>> getting this to work on multimodal data, as we've not had much
>> experience on this with IRTK.
>>
>> The next release of FSL will include FNIRT, a generic nonlinear
>> registration tool which seems to work really well.
>>
>> Cheers.
>>
>>
>>
>>
>> On 14 Dec 2007, at 19:05, Ping Wang wrote:
>>
>>> Dear FSL users:
>>>
>>> I have data in this situation: each subject has images from
>>> different modalities: T1,T2, ADC, CBF. Now I only consider one
>>> subject, I want to register all other modilitiy images to T2
>>> image. I know Flirt only do linear registration, I tested the
>>> results by Flirt, some are not good. Should I use non-linear
>>> registration? I am wondering which tool in FSL can do non-linear
>>> registration? tbss?
>>>
>>> Thanks, Ping
>>>
>>> Windows Live Writer,支持离线撰写博客内容,随时随地想写就写。 立即
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>>
>>
>> ----------------------------------------------------------------------
>> -----
>> Stephen M. Smith, Professor of Biomedical Engineering
>> Associate Director, Oxford University FMRIB Centre
>>
>> FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK
>> +44 (0) 1865 222726 (fax 222717)
>> [log in to unmask] http://www.fmrib.ox.ac.uk/~steve
>> ----------------------------------------------------------------------
>> -----
>>
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