[Homer-users] ETG-100 data

Fri Aug 25 13:04:29 EDT 2006

I thought I made this pretty general (of course I personally have never even
touched the ISS instrument- I work strictly with CW [not that I have
anything against Freq-domain or the ISS]).  The code uses the header
structure on the BOXY text files to sort the data.  I could be wrong,
because I only have our instrument to make any statements about.

Note- there is code at the begining of the script that must be modified to
specify the probe geometry, how many (and which) wavelengths the instrument
has (etc).  This code has been commented with TODO's at the begining.  The
defualt settings are for our specific instrument.

-Ted

-----Original Message-----
From: Dennis Hueber [mailto:dmhueber at iss.com]
Sent: Friday, August 25, 2006 11:56 AM
To: thuppert at nmr.mgh.harvard.edu
Cc: homer-users at nmr.mgh.harvard.edu; pietro scatturin
Subject: Re: [Homer-users] ETG-100 data

Dear Pietro,

I just looked at the files Ted sent. I do not program in MatLab, but it
seems that these are coded particularly for a ISS instrument at MGH. I'm
not sure if they are what you would want for your instrument (for
example you have only two wavelengths).

Ted,

I'm I correct?

Dennis

thuppert wrote:
> A while back I wrote conversion code to read the ISS BOXY text files into
> HOMER. I have uploaded it onto a file drop where you can download it.
> https://www.nmr.mgh.harvard.edu/facility/filedrop/showgroup/3108/1/world
>
> There are two programs:
>
> ISS2HOMER.m  -  The conversion wrapper program (Run this).
> ReadBOXYfile.m- A matlab reader for the BOXY text file
>
> DISCLAIMER:  I wrote these a while back and I am distributing these AS IS.
> I.e. they probably work, but I'm not guaranteeing to be completely bug
free
> (esp. wrt matlab version issues).
>
>
> Also-
> A former grad student in the lab has also built a GUI for the ISS (reading
> in the output of the BOXY files).  However, there is limited support for
> this.
> http://www.nmr.mgh.harvard.edu/DOT/resources/FDMDGUI/home.htm
>
>
> Ted Huppert, M.Sc.
>
> PhD Candidate
> Harvard University:
> Graduate Programs in Biophysics
> Photon Migration Imaging lab
> Massachusetts General Hospital
> Tel: (617)726-9338
>
> thuppert at nmr.mgh.harvard.edu
>
>
>
>
>
>
>
>
>
> -----Original Message-----
> From: pietro scatturin [mailto:p.scatturin at unipd.it]
> Sent: Friday, August 25, 2006 6:04 AM
> To: thuppert at nmr.mgh.harvard.edu
> Subject: RE: [Homer-users] ETG-100 data
>
>
> Dear Mr. Huppert,
>
>   I' m a technician, working now on a ISS Imagent FD instrument .
> Now I'm starting with the Homer package : is very
> helpful, but I have some difficulties to read Iss intensity data (text
> files):
> (I' m able with C++, little with Matlab)  . I'm grateful if you can help
me.
>
Tha
> nks
> Pietro
>
>
>
> P.S.
> At this time, I'm analyzing ISS data Files  with
> an EEG analysis software ( BRAINAMP Analyzer) via a my utility conversion,
> but with some serious limitations, due to time
> and Intensity scaling. If you are interested, i
> can send you the source code (C++)
>
>
>
>
>
>
> At 02:38 PM 6/7/2006, you wrote:
>
>> If anyone has these types of conversion programs that they would like to
>> share, we'd be happy to post them on the HOMER website.  If you email the
>> program to myself with some sort of brief description, we'll put some
sort
>> of download page on the HOMER website.  I have conversion programs for
the
>> TechEn instruments, the ISS frequency domain, and a very simple one for
>> Britton Chance's design.  I'll post these as soon as I can.
>>
>> Note, it might take a few weeks before I get to changing the website
>>
> because
>
>> I am leaving for the Human Brain Mapping conference in just a few hours.
>> ... and if anyone is in Florence, IT for the conference, I'll be
avaliable
>> to answer any HOMER related questions or otherwise.  I am also giving a
>>
> oral
>
>> presentation Tues 13th @17:45 in the Imaging I: EEG,MEG, and Optical
>> section.  The talk is entitled: Quantitative estimation of cerebral
>> hemodynamic changes through the multimodality fusion of BOLD and Diffuse
>> Optical Tomography.
>>
>>
>> Ted Huppert, M.Sc.
>>
>> PhD student-Harvard Univ.
>> Dept of Biophysics
>> Photon Migration Imaging lab
>> Mass General Hospital/CNY
>>
>> Tele: (617)726-9338
>>
>> thuppert at nmr.mgh.harvard.edu
>>
>>
>>
>>
>>
>>
>>
>>
>>
>>
>> -----Original Message-----
>> From: homer-users-bounces at nmr.mgh.harvard.edu
>> [mailto:homer-users-bounces at nmr.mgh.harvard.edu]On Behalf Of Mohinish
>> Sent: Wednesday, June 07, 2006 5:13 AM
>> To: homer-users at nmr.mgh.harvard.edu
>> Subject: Re: [Homer-users] ETG-100 data
>>
>>
>> Hi, I have a matlab script that does something of the sort; I can
>> send it around, but it might need tweaking (specially for the probe
>> layout)
>>
>>
>> On 7 Jun 2006, at 2:37 AM, Anna Lane wrote:
>>
>>
>>> Hello all,
>>>
>>> So I am trying to use MatLab to convert the *.mea files from the
>>> Hitachi ETG-100 to the *.nirs files necessary to use HOMer.  Any
>>> suggestions?  I can't seem to get anywhere with it.  I am NOT a CS
>>> or Physics person, so layman's terms will be best.  All help is
>>> appreciated.
>>>
>>> Thanks,
>>> anna
>>>
>>> --
>>>
>>> Anna Lane
>>>
>>> Lab Manager
>>> Northwestern Infant Cognition Lab
>>> Cresap 110
>>> 847-467-0246
>>> anna-lane at northwestern.edu
>>>
>>>
>>> _______________________________________________
>>> Homer-users mailing list
>>> Homer-users at nmr.mgh.harvard.edu
>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/homer-users
>>>
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>
>
>
>
>
> **************************************************
> Dott.Pietro Scatturin
> Dipartimento di Psicologia dello Sviluppo e della Socializzazione
> Università degli Studi di Padova
> Via Venezia 8
> 35131 Padova- Italy
> tel. +39 049-8276933
>
>
>
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