[Homer-users] AtlasViewer - visualizing recorded NIRS data

[David Boas]

A tutorial on how to use AtlasViewer is about to be published in Neurophotonics and will be freely available.

We will post the link to the paper here once it is available.

David




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> On Apr 20, 2015, at 12:02 PM, Meryem Ayse Yucel <mayucel at nmr.mgh.harvard.edu> wrote:
> 
> Hi Pankaj,
> 
> Please see my responses interleaved.
> 
> Meryem
> 
>> Hi Homer-users,
>> I am trying to get used to AtlasViewer. I have followed all the tutorial
>> videos on youtube and listed on tutorial page of Homer website.
>> Is there a way to visualise the actual recorded NIRS data over the Atlas ?
>> Some SPM or conditional comparison ?
> 
> The current version of AtlasViewer does not have this option, however that
> is in our to do list.
> 
>> 
>> As of now, please correct me if I am wrong, AtlasViewer can visualise the
>> optode, channel locations and compute and display sensitivity profiles for
>> channel locations.
> 
> That is correct. You can also evaluate probe fabrication error and
> inter-subject probe placement variability.
> 
>> 
>> Again, I find very little details as to what is sensitivity profile of a
>> channel ?
> 
> It is the sensitivity of the channel to absorption changes. Sensitivity
> matrix (A) transforms the absorption change in each voxel to a measurement
> change (eg optical density change). Or in other words, it will give us the
> information of how much absorption change has taken place if we observe
> this much optical density change at a specific source detector couple,
> because the optical density changes we observe is actually an integration
> of absorption changes over a volume (the tissue under the source and
> detector where the photon travel takes place). This A matrix can be
> obtained by performing Monte Carlo simulations of photon migration from or
> to each optode.
> 
> 
>> 
>> I appreciate efforts of the developers in making Homer and AtlasViewer
>> tools. Your response to my queries would really be appreciated.
>> 
>> Kind regards
>> Pankaj
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>> Homer-users at nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/homer-users
> 
> _______________________________________________
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> 
> 

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