[Homer-users] Homer II Questions

[Rachel Mulheren]

Great, I see the CondName variable in Matlab now!

I see, my confusion was over where to find the results whenprocessing a
session or group instead of a run. My computer had idenitifed the
groupResults file as a Microsoft Access file, but I now have it loaded in
Matlab. I see the procResult variable within this file, which I will export
to Excel. I do not, however, see a CondName variable within the
groupResults file to get the order of stim markers, and I want to make sure
I label the data accurately once I've exported to Excel. How would I locate
this order of stim markers?

Many thanks for your help, and I've signed up for the Homer II training
session.

Rachel

On Fri, Oct 12, 2012 at 9:51 AM, David Boas <dboas at nmr.mgh.harvard.edu>wrote:

>  Dear Rachel,
>
> I may not have enough information to answer your questions.
>
> Your first question is about stim marks (or stim condition names/labels)
> across different files in a folder. If the same label is used for stim
> marks in different files, even if in different orders, then those trials
> will be averaged together in the group average. I think this answers your
> question. Through the stimGUI, you can change the labels for different stim
> marks. Maybe this is the piece of information that is missing for you. If
> you load the nirs files, I believe there is a variable called CondName that
> will tell you the order of the stim conditions in the s matrix and the
> order of the results in the procResult.
>
> For your second question, it sounds like you want to look at group
> results. Within the GUI, there are radio buttons for choosing whether you
> look at the results for a run, a session, or a group. If you choose run,
> you will only see results for that run, etc.
>
> But your questions also indicate that you are looking at the variable
> procResult that appears in the NIRS files and in the groupResults.mat file.
> The procResult in the NIRS files will only have the results for each
> corresponding file. To observe the session and group results, you need to
> load groupResult.mat into matlab. This is not a Microsoft Access File. This
> is a matlab file, just like the nirs files. groupResults contains a
> structure called group, which has a field group. procResult which has the
> group results for you.
>
> I hope this helps.
>
> David
>
>
>
>
>
>
>
> On 10/10/12 2:48 PM, Rachel Mulheren wrote:
>
> To clarify my second questions, I am also getting the same results when I
> run an individual file and when I run a series of files as Group or
> Session. Should the processed data be in the procResult.dcAvg portion of
> the file for Group runs as well as individual runs? I noticed a Group
> Results file that was created in the NIRs folder, but it seems to be an
> empty Microsoft Access file. I also noticed no change in processed results
> when I use the Group Average box in the main Homer II window, so I'm not
> sure how this manipulates data (not menionted in the Homer II manual). If
> there is no way to average across files, as I thought the Session and Group
> options would, is there a way to combine .nirs data files?
>
> Thanks for any input.
>
>  On Tue, Oct 9, 2012 at 5:36 PM, Mulheren, Rachel Whitney - mulherrw <
> mulherrw at dukes.jmu.edu> wrote:
>
>>   I have 2 questions concerning Homer II:
>>
>>
>>  1). I know that the data is arranged by stim marker in the order in
>> which the stim markers were entered into Homer; however, is this order by
>> file or by folder? For example, the first file/run has the stim markers
>> entered in the order: "A", "B", "C". The second file/run has the stim
>> makers entered in the order "D" and "B." Would the processed data for the
>> second file list "D first, because it was the first stim marker added for
>> that run/file, or would the data for "B" be listed first because it was
>> entered in the *set* of files before "D"?
>>
>>
>>
>> 2). Is there any way to process data cumulatively across files within the
>> same session? When I ran the previously mentioned first and second files
>> with 2 additional files (named according to Homer manual convention) as
>> "Group", the data for the shared stim markers ("B") was different for each
>> file. If Homer had processed across files, I would expect that the results
>> for shared stim markers across files would be the same.
>>
>>
>>  Thanks,
>>
>>
>>  Rachel
>>
>>
>
>
>
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>
>
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