[Sai Prasanna]

Hi,
Do you guys have any reference manuals for the latest release of BRAPH2?
I was interested in knowing what the variables mean. For example, in the following lines,

strength_WU_diff = c_WU.getComparison(‘Strength’).get(‘DIFF’);
strength_WU_p1 = c_WU.getComparison(‘Strength’).get(‘P1’);
strength_WU_p2 = c_WU.getComparison(‘Strength’).get(‘P2’);
strength_WU_cil = c_WU.getComparison(‘Strength’).get(‘CIL’);
strength_WU_ciu = c_WU.getComparison(‘Strength’).get(‘CIU’);

What are P1, P2, Diff, …diff, ..p1, ..p2, ..cil, CIL, …ciu, CIU ?

And, in
c_WU = CompareEnsemble( …
‘P’, 10, …
‘A1’, a_WU1, …
‘A2’, a_WU2, …
‘WAITBAR’, true, …
‘VERBOSE’, true, …
‘MEMORIZE’, true …
);

Does p indicate the number of permutations of a random graph used in comparison?

I’d appreciate it if you could please help me with this.

Thanks.
Sai

[Sai Prasanna]

Yes, that’s right.
Thank you.

–
Sai Prasanna

[Sai Prasanna]

I used AAL Atlas, and the size of adjacency matrices for each of the 800 subjects is 116 * 116.
Executing precisely the code you provided took approximately the same time, or maybe a little more. But not hours, for sure.
Yes, I have installed the parallel computing toolbox.
I did not execute the comparison part. I was interested in obtaining the correlation matrices of all the subjects and all the graph metric values for each subject (all those metrics listed on the GUI module for 800 odd subjects). This is what took approximately 65 hours. I just wanted to confirm with you if this is a reasonable time.

I appreciate your quick responses. It makes the toolbox extremely user-friendly.

[Sai Prasanna]

Thanks. That works perfectly for me.
On an average configured system and for two groups with around 400 subjects each, completing the above task takes about 65 hours. Is that a usual case?

[Sai Prasanna]

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 analysis.memorize.”
I must be doing something wrong.

1. I have 200+ subjects. Saving individual correlation matrices through GUI would be a tedious process. How can I save them as separate .xls files for each subject through custom script?

[Sai Prasanna]

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.

[Sai Prasanna]

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 ?

[Sai Prasanna]

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

Thank you for your quick response. Much appreciated.

[Sai Prasanna]

Hi,
Thanks so much for your quick response. Feel motivated by active moderators like you.

1. The dataset I have started with is the ABIDE-I Preprocessed data. The time-series values are already available for various Atlases in text files for each subject. Is there any way I could generate the connectivity matrix using the data in this format?

2. I shall explore this.

Sure, I shall go through the tutorials.

Thanks
Sai

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