Hi,
FSLview has a problem with creating masks for input files in
neurological format ( like your antcing.nii.gz ) which means that the
saved file voxel-order will be inconsistent with the header on reload.
Fslswapdim <inconsistent_mask> -x y z <output_mask> should create a
mask consistent with your original input image.
Hope this helps
Matthew
> On Wed, 16 Jul 2008 13:57:56 +0100, Matthew Webster
> <[log in to unmask]> wrote:
>
>> Hi,
>> Do you want to upload your file to
>>
>> www.fmrib.ox.ac.uk/cgi-bin/upload.cgi
>>
>> and send us the 6-digit reference number - we'll have a look at the
>> file...
>>
>> Regards
>>
>> Matthew
>>
>>> On Sat, 12 Jul 2008 01:04:18 +0100, Matthew Hoptman <[log in to unmask]
>>>>
>>> wrote:
>>>
>>>> OK, I just verified it is a left-right flip.
>>>>
>>>> I created an ROI in fslview, saved it and then did:
>>>> fslmaths test -x y z testflip
>>>>
>>>> When I loaded in testflip.nii.gz, it was positioned where
>>>> test.nii.gz
>>> was.
>>>> But when I remove test.nii and reload it, it is now on the other
>>> hemisphere
>>>> (and mirrors the original file). There is no y or z shift.
>>>>
>>>> What implications does using the testflip.nii.gz ROI have for the
>>> resulting
>>>> tractography?
>>>> =
>>>> =
>>>> =
>>>> =
>>>> =
>>>> ===================================================================
>>> Hi all,
>>> Any further thoughts on this issue?
>>> Thanks,
>>> Matt
>>>
>> =
>> =
>> =
>> =
>> =====================================================================
> OK, I uploaded the ROI file as antcing.nii.gz. The reference number
> is
> 989056.
> Thanks,
> Matt
>
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