I have tried to get the coordinates with following commands:
*mri = MRIread('aseg.mgz');pos = find(mri.vol == 17);*
*[i,j,k] = ind2sub(10213,pos);*
However, I found that all values of 'j' are 1. is there something wrongs
with my strategy?
Best Regards,
Aziz.
On Mon, Sep 12, 2016 at 8:40 PM, Bruce Fischl <[email protected]>
wrote:
> Hi Aziz,
>
> make sure $FREESURFER_HOME/matlab is in your matlab path.
>
> cheers
> Bruce
>
> On Mon, 12 Sep 2016, Aziz Nanthaamornphong wrote:
>
>
>> Which the version of Matlab has a 'MRIread' function? I got this error
>> message from my installed Matlab (v. 8.4.0).
>> "Undefined function 'MRIread' for input arguments of type 'char'."
>>
>> Best Regards,
>> Aziz.
>>
>> On Mon, Sep 5, 2016 at 6:46 AM, Bruce Fischl <[email protected]>
>> wrote:
>> yup, or mri_Info called form the command line. If you use
>> MRIread on the aseg.mgz you can extract e.g. the left
>> hippocampus using matlab via:
>>
>>
>> mri = MRIread('aseg.mgz');
>> find(mri.vol == 17);
>> then compute the ras coords of those indices using ind2sub
>>
>> cheers
>> Bruce
>>
>> On Sun, 4 Sep 2016, Ruyuan Zhang wrote:
>>
>>
>> Hi, Aziz
>>
>> You can use MRIread function to read in a
>> volume (i.e. brainmask.mgz).
>> You will get a structure, which contains a field
>> called ras2vox.
>>
>> cheers
>>
>> ruyuan
>>
>> On 9/4/16 6:23 PM, Aziz Nanthaamornphong wrote:
>> Hi,
>> For example, I want to know the list of x, y, z
>> coordinates of a left
>> hippocampus volume.
>>
>> As you mentioned "ras2vox" matrices, hoe can I see
>> or get these
>> matrices?
>>
>> Thank you.
>> Aziz
>>
>> On Monday, 5 September 2016, Bruce Fischl
>> <[email protected]>
>> wrote:
>> Hi Aziz
>>
>> can you elaborate? What coordinates do you
>> want? What are
>> you trying to do with them? The .mgz format
>> contains
>> ras2vox matrices that let you go from voxel
>> indices to RAS
>> coordinates and such.
>>
>>
>> cheers
>> Bruce
>>
>>
>> On Sun, 4 Sep 2016, Aziz Nanthaamornphong
>> wrote:
>>
>> Dear Freesurfer experts,
>> How can we get the coordinates (X, Y, Z)
>> of a
>> particular volume? I couldn't
>> find any functions or command to do
>> that.
>>
>> Thank you in advance.
>>
>> Aziz.
>>
>>
>>
>>
>> --
>>
>> Aziz Nanthaamornphong, Ph.D.,
>> Chair of Master of Science Program in Information
>> Technology
>> Department of ICT
>> Faculty of Technology and Environment
>> Prince of Songkla University, Phuket Campus
>> +66 7627 6716 (v)
>> http://research.te.psu.ac.th/aziz
>>
>>
>>
>>
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>>
>> --
>>
>> Aziz Nanthaamornphong, Ph.D.,
>> Chair of Master of Science Program in Information Technology
>> Department of ICT
>> Faculty of Technology and Environment
>> Prince of Songkla University, Phuket Campus
>> +66 7627 6716 (v)
>> http://research.te.psu.ac.th/aziz
>>
>>
>>
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> is
> addressed. If you believe this e-mail was sent to you in error and the
> e-mail
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> HelpLine at
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> dispose of the e-mail.
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>
--
Aziz Nanthaamornphong, Ph.D.,
Chair of Master of Science Program in Information Technology
Department of ICT
Faculty of Technology and Environment
Prince of Songkla University, Phuket Campus
+66 7627 6716 (v)
http://research.te.psu.ac.th/aziz
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