[Mrtrix-discussion] generate ROI 3D using gen_ROI in a script

[Arnaud Boré]

Hi Donald,

Thank you for your answer. I found the way to convert position to voxels
coordinates. Now I'm just going to code something quickly to create a
sphere from a voxel indices.

Thank you for your help. Really appreciated !

Arnaud


2013/10/2 Donald Tournier <jdtournier at gmail.com>

> Hi Arnaud,
>
> gen_ROI will create a binary mask image with ones only within the
> boundaries specified with the -coord option. These are passed as voxel
> indices (as a number sequence, e.g. -coord 0 10:20 for indices 10 to 20
> along the x-axis). It looks like you need them to be specified in scanner
> coordinates, so this might not be suitable for you. Also, it can only
> generate rectangular regions, which may or may not be suitable for you. If
> you can convert the position and size to voxel coordinates, then it will do
> what you want, but otherwise it would require a bit of effort to code
> something up.
>
> Hope that helps.
> Cheers,
>
> Donald.
>
>
> On 30 September 2013 16:53, Arnaud Boré <arnaud.bore at gmail.com> wrote:
>
>> Dear Mrtrix experts,
>>
>> I try to create a 3D ROI using its position and with a size of 10mm.
>> I think that using gen_ROI I will be able to do it but so far I didn't
>> find how.
>>
>> Can you help me please.
>>
>> Thank you
>>
>> Arnaud
>>
>> --
>> Arnaud BORE
>> Research assistant
>> Cellulaire : (001) 514-647-8649
>>
>>
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>>
>
>
> --
> *Dr J-Donald Tournier (PhD)*
>
> *Senior Lecturer, **Biomedical Engineering*
> *Division of Imaging Sciences & Biomedical Engineering
> King's College London*
> *
> *
> *A: Department of Perinatal Imaging & Health, 1st Floor South Wing, St
> Thomas' Hospital, London. SE1 7EH
> *
> *T: +44 (0)20 7188 7118 ext 53613*
> *W:
> http://www.kcl.ac.uk/medicine/research/divisions/imaging/departments/biomedengineering
> *
>



-- 
Arnaud BORE
Research assistant
Cellulaire : (001) 514-647-8649
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