[Neuroimaging] GC analysis with nitime

[Bennet Fauber]

Mike,

I reported the blank plots in an Issue at GitHub.  I think there may
be more that is needed before they make a new release and refresh the
tutorial page.

    https://github.com/nipy/nitime/pull/176
    https://github.com/nipy/nitime/issues/173

Sorry, can't help with the rest.

On Fri, Jul 5, 2019 at 7:37 PM Mike V <mikeltv95 at gmail.com> wrote:
>
> Hello,
>
> I'm following the Granger Causality tutorial in the nitime's webpage but I have few questions:
>
> 1- In the tutorial the values f_ub = 0.15 and f_lb = 0.02 are used for the bounds on the frequency band of interest. Are these values recommended for all resting state data-sets or do they depend on the particular acquisition parameters?
>
> 2- I do not understand the causality plots (fig03 and fig04), they are both blank. What does it mean? I was expecting some variation like in the coherence and correlation matrices...
>
> 3- the tutorial shows the analysis of one single subject. How can I compute group statistics? Can I simply extract the values stored in g1 and then run a one sample t-test across all subjects' g1 scores?
>
> 4- how can I get GrangerAnalyzer to display significance?
>
> 5- I noticed that the tutorial data has been motion corrected only. Is it not necessary to correct for other sources of noise like physiological noise and linear drift before computing GC?
>
> Many thanks in advance!
>
> Best regards,
> Mike
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