I am very appreciate your answers.And I want to know that if I want to segment the hippocampus,can I only use the bet and first ?The bet and first are enough？

 

Thanks in advance,

Wily





At 2013-06-20 01:48:40,"Mark Jenkinson" <[log in to unmask]> wrote:

Dear Wily,

There is certainly no need to use SPM.  Everything can be done in FSL alone.

All the best,

Mark

On 19 Jun 2013, at 04:18, cwlzxm27 <[log in to unmask]>

 wrote:

Hi Mark,

I am afraid I ask one more question.If I want to segment the hippocampus,need I use the spm?Can I only use the FSL?

Thanks in advance,

Wily

At 2013-06-17 15:46:23,"Mark Jenkinson" <[log in to unmask]> wrote:
>Hi,
>
>I think there could be two things that cause this:
>
>1 - SPM can put NaNs into some voxels (a code for Not a Number) and FSL cannot cope with this.  If this is the case then they need to be removed with fslmaths before any other processing in FSL.
>
>2 - We recommend segmenting in the original structural space, and not a resampled space, because the latter has extra interpolation artefact and partial voluming that was not present in the original space.  So if your normalising in SPM is also applying a transformation to standard space, then we would recommend against that.
>
>All the best,
>	Mark
>
>
>On 14 Jun 2013, at 07:08, SUBSCRIBE FSL Wily <[log in to unmask]> wrote:
>
>> Hi expert,
>> If I use bet,first to segment the hippocampus,I can get the right result.But if I use spm to normolise the sMRI,sometimes I am success,but almost time I am failure.I want to know the reasons.
>> 
>> 
>> 
>> 
>> 
>> 
>> Thanks in advance,
>> Wily