26 Jan
2016
26 Jan
'16
4:20 p.m.
Dear Doug,
Thanks for your reply. Is it possible to upload the raw DICOM to a server so that you can see if mri_convert is making the orientation in the output NII file neurological? I just want to make sure what my image orientation is and how mri_convert interacts with it.
Many thanks! Daniel
--
Daniel Yang, Ph.D.
Yale Child Study Center
E-mail: daniel.yj.yang@yale.edu
On 1/25/16, 1:47 PM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of
Douglas N Greve" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of
greve@nmr.mgh.harvard.edu> wrote:
>not necessarily. For FSL, the determinant must be less than 0 (see
>mri_info output). Having said that, even if the det<0, it may still show
>up funny in fslview
>
>On 01/25/2016 12:11 PM, Yang, Daniel wrote:
>> Dear FreeSurfer experts,
>>
>> I find that mri_convert will convert DICOM of structural scan to
>> neurological orientation by default.
>>
>> For example, mri_convert --in_type dicom --out_type mii <first file in
>> the DICOM directory> <output.nii.gz>
>>
>> Thus, the NII may need to be swapped in x for use in FSL.
>>
>> In this the case?
>>
>> Many thanks,
>> Daniel
>>
>> --
>> Daniel Yang, Ph.D.
>> Yale Child Study Center
>> E-mail: daniel.yj.yang@yale.edu
>>
>>
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>
>--
>Douglas N. Greve, Ph.D.
>MGH-NMR Center
>greve@nmr.mgh.harvard.edu
>Phone Number: 617-724-2358
>Fax: 617-726-7422
>
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