[Mne_analysis] [fNIRS] Group analysis

David JULIEN david.julien at ifsttar.fr
Wed Jun 24 06:17:29 EDT 2020
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Hmmm. I'm really sorry, I don't quite know the specific terms for data analysis. To get some context, I'm part of the tech team in our lab : I'm not the one analyzing data, but I provide tools to others to do so (they're not devs, and some are not even scientists per se - they study cognition, but more at a functional level). 

SO. From what I've understood, they would like to show a corellation between the performance of a precise action and haemodynamic changes. As of today, they use the Homer2/3 libraries along with MATLAB, but we would like to move on to open source projects. 

They used a NIRSport to get the relevant raw data, which I can process using the fNIRS library, but only one at a time. What I would like to get, is the ability to : 
1. convert the data from each performance of the experiment into an Epoch 
2. squash the results into one single usable object 
3. process this object, if needed 
4. get figures with the average haemodynamic response of the group 

Now I could obviously create an Epoch list after processing each set, but then comes the question of *averaging* the results. I tried to use the epoch.add_channels method to have one Epoch object, but then the other methods (such as epoch.plot_image) break because channels are duplicated. 

Hope it is clearer, 


> De: "Alexandre Gramfort" <alexandre.gramfort at inria.fr>
> À: "mne_mailing_list" <mne_analysis at nmr.mgh.harvard.edu>
> Envoyé: Mercredi 24 Juin 2020 11:41:41
> Objet: Re: [Mne_analysis] [fNIRS] Group analysis

> External Email - Use Caution

> hi David,

> what you mean by group analysis? can you be more specific?
> GLM style analysis?

> Alex

> On Wed, Jun 24, 2020 at 10:42 AM David JULIEN <david.julien at ifsttar.fr> wrote:

>> External Email - Use Caution

>> Hello ladies and gentlemen,

>> I already checked for the matter in the mailing list archive and searched
>> through the code, but couldn't find what I was hoping for.
>> Is there a suite of tools/library to perform group analysis with Epoch/Raw
>> instances?

>> Let me clarify. I can already perform data analysis/conversion for one dataset
>> concerning one performance of an experiment. I would like to either directly
>> perform such processing for a group of datasets, or use the converted data
>> (i.e. the Epochs) of several datasets to obtain one single figure of
>> haemodynamic response. I encountered several difficulties to analyze Epochs
>> from several since the channels would be "duplicated" as they exist for the
>> first and the second Epochs sets, leading to obvious errors.

>> Sorry if I missed the thread where it has been discussed, and thanks in advance,

>> David
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