[Mne_analysis] Resting state connectivity

[Sheraz Khan, PhD]

Hi Noam,

Did you try envelope correlations or its flavors like orthogonal
correlations (Hipp or Brookes) ?

They are found to be most reliable for resting state connectivity.

http://www.sciencedirect.com/science/article/pii/S1053811916301914

HTH

Sheraz




> Yep, this is my problem :)
> Do you know any other approach for resting state connectivity?
>
> Thanks,
> Noam
> ________________________________
> From: mne_analysis-bounces at nmr.mgh.harvard.edu
> [mne_analysis-bounces at nmr.mgh.harvard.edu] on behalf of Denis-Alexander
> Engemann [denis.engemann at gmail.com]
> Sent: Friday, February 03, 2017 2:22 PM
> To: Discussion and support forum for the users of MNE Software
> Subject: Re: [Mne_analysis] Resting state connectivity
>
> Ah no the assumption here is that you aggregate over trials. If you just
> send one window you cannot get a meaningful score.
>
> On Fri, Feb 3, 2017 at 8:13 PM Peled, Noam
> <NPELED at mgh.harvard.edu<mailto:NPELED at mgh.harvard.edu>> wrote:
> Hey Denis!
> Thanks for the answer!
> My problem isn't creating the events (actually I didn't know about this
> function and now I can delete the code I wrote for that), but how to send
> one window to the mne.connectivity.spectral_connectivity (one of the PLI
> methods) without getting all zeros or nans.
>
> Thanks,
> Noam
> ________________________________
> From:
> mne_analysis-bounces at nmr.mgh.harvard.edu<mailto:mne_analysis-bounces at nmr.mgh.harvard.edu>
> [mne_analysis-bounces at nmr.mgh.harvard.edu<mailto:mne_analysis-bounces at nmr.mgh.harvard.edu>]
> on behalf of Denis-Alexander Engemann
> [denis.engemann at gmail.com<mailto:denis.engemann at gmail.com>]
> Sent: Friday, February 03, 2017 1:51 PM
> To: Discussion and support forum for the users of MNE Software
> ý[mne_analysis at nmr.mgh.harvard.edu<mailto:mne_analysis at nmr.mgh.harvard.edu>]ý
> Subject: Re: [Mne_analysis] Resting state connectivity
>
> Hi Noam,
>
> checkout `mne.make_fixed_length_events`,
>
> Denis
>
> On Fri, Feb 3, 2017 at 7:50 PM Peled, Noam
> <NPELED at mgh.harvard.edu<mailto:NPELED at mgh.harvard.edu>> wrote:
> Hey all,
> What is the best approach for resting state connectivity analysis?
> It seems that mne.connectivity.spectral_connectivity is design for evoked
> data.
> In resting state, the different 'epochs' are sliding windows in time, so
> for each calculation I can send only one epoch, which yields to zeros
> (pli2_unbiased).
>
> Thanks,
> Noam
>
>
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-------------------------
Sheraz Khan, M.Eng, Ph.D.
Instructor in Neurology

Athinoula A. Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Harvard Medical School

McGovern Institute for Brain Research
Massachusetts Institute of Technology

Tel:   +1 617-643-5634
Fax:   +1 617-948-5966
Email: sheraz at nmr.mgh.harvard.edu
       sheraz at mit.edu
Web:   http://sheraz.mit.edu