[Homer-users] Probabilistic Spatial Resgistration

[Maria Arredondo]

Hi all,
To further extend this thread...
I was wondering if anyone knows how to (or what program to use) to get
reliable MNI coordinates when using a MRI scan.
We scanned someone in the MRI using Vitamin E capsules on our cap, but
currently we are unsure on how to convert the Vitamin E capsules to MNI
coordinates. What program do you use to normalize and reliably project down
into the brain the capsules? And how do you do it?
Any suggestions are greatly appreciated!
Thank you,
-Maria

On Mon, Feb 4, 2013 at 6:56 PM, Simone Cutini <simone.cutini at unipd.it>wrote:

>  Hi Drew,
> you might also check the Münster T2T-Converter:
> http://wwwneuro03.uni-muenster.de/ger/t2tconv/
> Basically, it allows to obtain the MNI coordinates from 10-20 measurements
> (and viceversa).
> This is the link to the 3D app:
> http://wwwneuro03.uni-muenster.de/ger/t2tconv/conv3d.html
> Note that the results are slightly different from those observed in other
> studies on cranio-cerebral correlation.
>
> Simone
>
>
>  Hi Austin,
>
>  Thanks for your reply.  I had indeed seen those slides from Ippeida Dan,
> but had glazed over the MNI table -- Thanks!  I guess it would be fairly
> straight forward to put together a spreadsheet that computes 10-20 based on
> distance measurements.
>
>  Cheers,
> Drew
>
> On Mon, Feb 4, 2013 at 11:57 AM, austin1 <astoudenmire at earthlink.net>wrote:
>
>>  Drew
>>
>>
>>
>> Dunno if you've seen this site:
>>
>> http://www.jichi.ac.jp/brainlab/download/fNIRS_Course_Dan.pdf
>>
>> but it might help some.
>>
>> Also, to compute 10-20 sites from distances (nasion-inion, etc.), it
>> would just be a matter of percents from one to the other.
>>
>> Then the reference above gives a chart on one of the slides that shows
>> 10-20 to MNI conversion.
>>
>> Is this something on the order of what you're looking for?
>>
>>
>>
>> Austin
>>
>>
>>  -----Original Message-----
>> From: Drew Halliday
>> Sent: Feb 1, 2013 5:07 PM
>> To: homer-users at nmr.mgh.harvard.edu
>> Subject: [Homer-users] Probabilistic Spatial Resgistration
>>
>> Hello NIRS community,
>>
>>
>>
>> Has anyone successfully used gross anatomical landmarks (e.g., nasion,
>> inion, left and right preauriculars) to computer probabilistic spatial
>> registration using either Homer 2, or another program (e.g., fNRI Tools
>> from Ippedia Dan’s group)? My understanding is that this can be done
>> without MRI or 3D Digitizer data, however the disconnect for me is in
>> computing 10-20 or MNI coordinates based simply on distances from
>> nasion-inion, left-right preauriculars, and other combinations of distances
>> between these landmarks.
>>
>>
>>
>> As the AltasViewer GUI in Homer 2 is not yet available, I have been using
>> fNRI Tools, and to a lesser extent NIRS_SPM.  An ‘origin’ and ‘others’
>> spreadsheet (.csv) are called during this process, however these
>> spreadsheets contain x, y and z axis coordinates, presumably computed using
>> either 3D digitizer data, MRI scans, or gross anatomical measurements.
>>
>>
>>
>> Does anyone know how to use a probe geometry file, combined with gross
>> anatomical measurements, and produce said origin and others spreadsheets?
>> All thoughts are welcomed!
>>
>>
>>
>> Thanks,
>>
>> Drew
>>
>>
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>
>
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>
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>
> --
>
> Simone Cutini, PhD, Post-doctoral Research Fellow
> Department of General Psychology, University of Padova
> Via Venezia 8, 35131, Padova, Italy
> Tel: +39.049.8276528
> Fax: +39.049.8276600
> My Profile on Mendeley <http://www.mendeley.com/profiles/simone-cutini/>
>
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> e-mail
> contains patient information, please contact the Partners Compliance
> HelpLine at
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-- 
Maria M. Arredondo
Doctoral Student, Developmental Psychology
University of Michigan
530 Church Street, 2036 East Hall
Ann Arbor, MI 48109-1043
Office: 734-936-3188
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