Thanks Saad and Stam,
When I tried to use main structural image I got the following error message:
ERRORS: ++ WARNING:
nifti_read_buffer(/data/DTI/KS-dicom_new.bedpostX/DBIEX_FSL_6_1_brain.nii.gz):
data bytes needed = 167772160
data bytes input = 158325424
number missing =9446736
Could you tell how I can check what is wrong with the file?
For the meantime I used standard space for Registration.
Regarding Saad's instruction, I don't see a transformed image created after Registration. Should it be created in the bedpostx directory? I only got transfer matrix files in xfms directory.
Best,
Kazu
>Also, you need to use something like an MPRAGE as the Main Structural image, rather than the EPI b0 image, which is of lower quality.
>Cheers,
>Stam
On 14 Sep 2010, at 09:14, Saad Jbabdi wrote:
> Hi Kazu
> You may have passed the wrong FLIRT transformation to probtrackx.
> Please make sure that:
> 1. The transformation from b0 to struct is correct (overlay the result on the structural in fslview)
> 2. You pass to probtrackx the _inverse_ of the above transform (i.e. from struct to b0)
> 3. Your seed/target masks are all in structural space
>
> Cheers,
> Saad.
>
>
> On 14 Sep 2010, at 06:28, Kazu Tanji wrote:
>
>> Hi list,
>>
>> I found the result of PROBTRACKX, fdt_paths.nii.gz, to be apparently misaligned.
>> For Registration I used skullstripped b0 image as the Main structural image.
>> I don't know if this is relevant but before that, I noticed BEDPOSTX had finished too early like in 6 hours.
>> Is there a way to check what is going wrong?
>>
>> Best,
>> Kazu
>>
>
> --
> 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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