[Homer-users] Simultaneous display of raw data and stimulus condition
austin1
astoudenmire at earthlink.net
Mon Oct 29 12:07:09 EDT 2012
Thank you, that was the problem! Not only did i have marks at the start and stop but at each time point, showing the condition in affect at each time point.
Now it's on to trying to finding out why session and group aren't working.
Thanks again!
-----Original Message-----
>From: Meryem Ayse Yucel <mayucel at nmr.mgh.harvard.edu>
>Sent: Oct 23, 2012 7:17 PM
>To: austin1 <astoudenmire at earthlink.net>, homer-users at nmr.mgh.harvard.edu
>Cc: homer-users at nmr.mgh.harvard.edu
>Subject: Re: [Homer-users] Simultaneous display of raw data and stimulus condition
>
>Hi Austin,
>
>The stimulus mark should show the 'beginning of each stimulus' and should
>change color when you have different type of stimulus (ie when you have >1
>columns in your s matrix, as you have 5 columns, you have 5 diff colors).
>I guess you have a very dense stimulus pattern that is why they look as in
>your jpeg. If you zoom you should be seeing the separate ones. Also please
>change your s vector so that it only has the start but not the stop of
>each stim.
>
>Hope this helps,
>
>Meryem
>
>> I downloaded a new Homer and am still not seeing the data at the same time
>> as the stimulus marks. I went back to the user's guide to make sure
>> "stimulus marks" was referring to marks indicating the start and stop of
>> each condition change and I believe that it is.
>>
>> I have attached a jpgof the figure I get when i check the stim box. It is
>> not "marks" at all but bands of color, each color indicating a different
>> condition. Nothing like the "marks" in the users guide which appear to
>> indicate when the condition changes from one stimulus to another.
>>
>> I also attached the desc of my variables that I forgot to attach last time
>>
>> If someone has a sample NIRS file that is complete (sensor, source, data
>> collected, t, s, etc.) I could load that and compare with what I'm
>> getting.
>>
>> Thanks!
>>
>> Austin
>>
>>
>>
>> -----Original Message-----
>>>From: Meryem Ayse Yucel <mayucel at nmr.mgh.harvard.edu>
>>>Sent: Oct 20, 2012 10:28 AM
>>>To: austin1 <astoudenmire at earthlink.net>, homer-users at nmr.mgh.harvard.edu
>>>Cc: homer-users at nmr.mgh.harvard.edu
>>>Subject: Re: [Homer-users] Simultaneous display of raw data and stimulus
>>> condition
>>>
>>>I do not see any attachment. The warning you get saying 1 of the trials
>>> is
>>>excluded is fine, let me know if there is anything else. I'd try to
>>>download a fresh homer and rerun.
>>>
>>>Meryem
>>>
>>>>
>>>>
>>>> I checked and s and d are the same size (same no of rows). I've
>>>> attached
>>>> a pdf of the variables. Also, I've pasted SD below. Meanwhile I'll
>>>> try
>>>> to debug to find where I'm getting the warning when the data loads.
>>>>
>>>> SD =
>>>> Lambda: [780 830]
>>>> SrcPos: [0 0 0]
>>>> DetPos: [2 0 0]
>>>> nSrcs: 1
>>>> nDets: 1
>>>> MeasList: [2x4 double]
>>>> xmin: -1
>>>> xmax: 3
>>>> ymin: -1
>>>> ymax: 1
>>>> MeasListAct: [2x1 double]
>>>> MeasListVis: [2x1 double]
>>>>
>>>> -----Original Message-----
>>>>>From: Meryem Ayse Yucel <mayucel at nmr.mgh.harvard.edu>
>>>>>Sent: Oct 19, 2012 11:04 AM
>>>>>To: austin1 <astoudenmire at earthlink.net>,
>>>>> homer-users at nmr.mgh.harvard.edu
>>>>>Cc: homer-users at nmr.mgh.harvard.edu
>>>>>Subject: Re: [Homer-users] Simultaneous display of raw data and
>>>>> stimulus
>>>>> condition
>>>>>
>>>>>Does the size of your s matrix (X,A) match with the size of your d
>>>>> matrix
>>>>>(X,B) in your .nirs file? Do you see any error message on matlab
>>>>> command
>>>>>window after you click?
>>>>>
>>>>>Meryem
>>>>>
>>>>>
>>>>>>
>>>>>> When I check the box I get the stimulus marks but the data goes away.
>>>>>>
>>>>>>
>>>>>> -----Original Message-----
>>>>>>>From: Meryem Ayse Yucel <mayucel at nmr.mgh.harvard.edu>
>>>>>>>Sent: Oct 18, 2012 2:56 PM
>>>>>>>To: austin1 <astoudenmire at earthlink.net>,
>>>>>>> homer-users at nmr.mgh.harvard.edu
>>>>>>>Cc: homer-users at nmr.mgh.harvard.edu
>>>>>>>Subject: Re: [Homer-users] Simultaneous display of raw data and
>>>>>>> stimulus
>>>>>>> condition
>>>>>>>
>>>>>>>Hi Austin
>>>>>>>
>>>>>>>There is a small checkbox at the lower corner of the plot area in the
>>>>>>> GUI.
>>>>>>>If it is checked you will see the stim marks, however you should have
>>>>>>> an
>>>>>>> s
>>>>>>>matrix in your .nirs file.
>>>>>>>
>>>>>>>Meryem
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> <HEAD>
>>>>>>>> <STYLE>body{font-size:10pt;font-family:arial,sans-serif;background-color:#ffffff;color:black;}p{margin:0px;}</STYLE>
>>>>>>>>
>>>>>>>> <META content="MSHTML 6.00.6000.17114" name=GENERATOR></HEAD>
>>>>>>>> <BODY>
>>>>>>>> <P><FONT color=#000000><FONT size=2><FONT face=arial,sans-serif>Is
>>>>>>>> there a
>>>>>>>> way to show the plot of raw data (or OD, etc.) at the same time the
>>>>>>>> stimulus condition is plotted?</FONT></FONT></FONT></P>
>>>>>>>> <P><FONT color=#000000><FONT size=2><FONT
>>>>>>>> face=arial,sans-serif>Thanks!</FONT></FONT></FONT></P>
>>>>>>>> <P><FONT color=#000000><FONT size=2><FONT
>>>>>>>> face=arial,sans-serif>Austin<BR></P></FONT></FONT></FONT></BODY>
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