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Hi Sai Prasanna,

Thanks for the follow-up feedback.
I would like to provide further information based on example_FUN_WU.m about the following
(1) Get individual graph metrics/graph measures.
(2) Get individual correlation matrices/adjacency matrices.

Kindly Follow the steps below:

Step 1: Copy and paste the following codes at the end of example_…[Read more]

Thanks for your responses.
Sorry, if I’m asking too many questions.

1. I just tried as you mentioned. However, after running my script for calculating the analysis,

ms1 = cellfun(@(x) x.getMeasure(‘Degree’).memorize(‘M’), analysis.memorize(‘G_DICT’).getItems, ‘UniformOutput’, false)

gives me an error that says, “Unable to resolve the name…[Read more]

1. You can export the results to XLS if you right-click on the top of the table that is visualized by pressing Data Selected Measures or Data Selected Comparison.
2. Check Figure 11 and Figure 14 in this tutorial to see what I mean by going to Data Selected Measures or Data Selected Comparison:…

[Read more]

I’m trying to use the example_FUN_BUD as you mentioned. I need to calculate all the graph metrics. The example file mentions 2-3 metrics. Do I use similar methods for all other metrics ?

I would appreciate your guidance on saving the individual subject correlation matrices as well.

Thanks. I will try that.

Also, the GUI is giving me an option of exporting the results as a JSON file only. Could you please let me know how I can save the group average results into an XLS file ?

Dear Sai Prasanna,

The export to XLS file in the GUI is made on the group average results. Nevertheless, we keep the results for each subject. To obtain those, you will need to create your own script. Use ‘example_FUN_WU’ as a base, which is located in the Functional folder inside pipelines, and after calculating the analysis use the following…[Read more]

Dear Sergio,

We provide example data for using functional analysis pipelines. And by functional, we understand data that have a time series by region of analysis. In that case, the example data (generated data) provided under “example data FUN (fMRI)” is also valid for EEG.

In order to get started with the software and the analysis of EEG data…[Read more]

Dear Anna,

Thank you very much for the update!

Dear Avalon,

In our newest release (https://github.com/softmatterlab/BRAPH-2-Matlab/releases/tag/2.0.0.a3) we added connectivity multiplex pipelines, where the input is an adjacency matrix for each layer per subject.
To understand the structure of the input data, you can check the following tutorial…[Read more]

Dear Sai Prasanna,

Could you please let us know which release are you using?
We recommend using our latest one: http://braph.org/2022/11/15/braph-2-0-0-a2-released/

Sometimes parallel computing has problems while using Graphical user interfaces. You could try de-activating it.
Or you could deactivate in the GUI the Memorize Intermediate Results…[Read more]

You can just create your own atlas in XLS, following the same structure 🙂
And then make sure you have the same brain regions included in the atlas and in your subject’s data

Best,
Anna

My follow up question is that I don’t find a match between my data and any atlas. I have a mix of desikan with some other subcortical data like this

35 L.CER Left-Cerebellum-Cortex 230 148 34 255

36 L.TH Left-Thalamus 0 118 14 255
36 L.TH Left-Thalamus-Proper 0 118 14 255
37 L.CA…[Read more]

thank you!

Thanks, I realised that immediately after posting here. My bad.

Thank you for your quick response. Much appreciated.

Dear Sai Prasanna,

Since you have time series as input, you should use the Functional pipelines, such as Pipeline functional comparison WU/BUD/BUT. In that case, you should arrange the files of each subject in the format 196 (rows) x 111 (columns)
Here you can see how to organize your subjects’ files to use functional pipelines:…[Read more]

Dear Rene,

As you already mentioned, you should have the same number of ROIS in the atlas and in your matrix. In this case, you should only keep the rows of the 84 regions used for the analysis in the atlas file.

Best,

Anna Canal