[Homer-users] SD geometry warning and baseline removal

[Jörn M. Horschig]

Hi Gavin,

Concerning your first point, could you send me one of your datafiles (oxy-file)? Then I can have a look if the warning comes from our side (i.e. something happening during the conversion from the oxy-file to Homer) or not. In any case, I wouldn't worry too much as long as your distances are okay. I am not sure about the warning, but maybe it is indeed happening because you are using more than one distance? Just a wild guess though.

All the best,
Jörn

--
Jörn M. Horschig, PhD, Software Engineer
Artinis Medical Systems  |  +31 481 350 980 
http://www.artinis.com


-----Original Message-----
From: homer-users-bounces at nmr.mgh.harvard.edu [mailto:homer-users-bounces at nmr.mgh.harvard.edu] On Behalf Of Tempest.GAVIN at unice.fr
Sent: Thursday, March 10, 2016 17:23
To: homer-users at nmr.mgh.harvard.edu
Subject: [Homer-users] SD geometry warning and baseline removal

Dear HomER users,
I have found the forum a very helpful source of information and I have a couple of questions of my own about data analysis.
Briefly; I have data converted from Oxysoft (.oxy) to .nirs files. Data were collected during 60min cycling exercise from two 1x4 squares with a SD distance of either 3 or 4cm. I am using HomER to process the data (filter, remove and correct artefacts etc.) before export.
1.	When I load the files into HomER, I receive the following error: 
‘WARNING: More than One SD geometry found. Might cause errors’. What is the reason for this and how should it be fixed?
2.	I am not using stimuli markers or block averaging sections of the 
data; however the first two minutes of each dataset are ‘resting’ 
measures (baseline).  I would like to remove the baseline data from the subsequent signal or to use these data as a reference; perhaps incorporating these data would influence the motion correction functions
(?) Does HomER include a function to account for an initial baseline during the processing stages?
Any help is much appreciated,
Gavin

Research Fellow
Laboratory LAMHESS
University of Nice, France

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