# Cluster Analysis for Time-Frequency Data **URL:** \ **Category:** Mailing List Archive (read-only)\ **Tags:** list-archive\ **Created:** [May 2, 2019, 6:01pm UTC](https://mne.discourse.group/t/cluster-analysis-for-time-frequency-data/1831 "2019-05-02T18:01:01Z")\ **Posts on this page:** 3\ **Page:** 1
**Author:** ![system](https://global.discourse-cdn.com/free1/uploads/mne/original/1X/85cc6bd2b69cb698a166dc6d880fb550510d0144.jpeg) [@system](https://mne.discourse.group/u/system)\ **Post date:** [May 2, 2019, 6:01pm UTC](https://mne.discourse.group/t/cluster-analysis-for-time-frequency-data/1831/1 "2019-05-02T18:01:01Z")
External Email - Use Caution Hi all, I have used \*spatio\_temporal\_cluster\_1samp\_test\* on my time-frequency data (power (EpochsTFR) with a shape:[epochs X chan X freqs X time] ). I have read the cited paper (MarisOostenveld07) for the permutation tests. However, it is still not clear to me what these functions are exactly doing. I have confused about the cluster analysis after seeing my plots. I have attached parts of my code and my results to this email. [image: timefreq\_stat.png] The first row shows the power activities and the second row shows the p-values of the cluster analysis (red points are significant points). I would be thankful if someone can give me some general explanation of these functions. Is it normal to see a high non-significant activity and low but significant activity based on the permutation cluster analysis? Thank you, -------------- next part -------------- An HTML attachment was scrubbed... URL: [http://mail.nmr.mgh.harvard.edu/pipermail/mne\_analysis/attachments/20190502/9a76a83c/attachment-0001.html](http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20190502/9a76a83c/attachment-0001.html) -------------- next part -------------- A non-text attachment was scrubbed... Name: timefreq\_stat.png Type: image/png Size: 478930 bytes Desc: not available Url : [http://mail.nmr.mgh.harvard.edu/pipermail/mne\_analysis/attachments/20190502/9a76a83c/attachment-0002.png](http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20190502/9a76a83c/attachment-0002.png) -------------- next part -------------- A non-text attachment was scrubbed... Name: timefreq\_stat.png Type: image/png Size: 478930 bytes Desc: not available Url : [http://mail.nmr.mgh.harvard.edu/pipermail/mne\_analysis/attachments/20190502/9a76a83c/attachment-0003.png](http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20190502/9a76a83c/attachment-0003.png) -------------- next part -------------- A non-text attachment was scrubbed... Name: timefreq\_stat.py Type: text/x-python-script Size: 17750 bytes Desc: not available Url : [http://mail.nmr.mgh.harvard.edu/pipermail/mne\_analysis/attachments/20190502/9a76a83c/attachment-0001.bin](http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20190502/9a76a83c/attachment-0001.bin) ---
**Author:** ![system](https://global.discourse-cdn.com/free1/uploads/mne/original/1X/85cc6bd2b69cb698a166dc6d880fb550510d0144.jpeg) [@system](https://mne.discourse.group/u/system)\ **Post date:** [May 3, 2019, 5:02pm UTC](https://mne.discourse.group/t/cluster-analysis-for-time-frequency-data/1831/2 "2019-05-03T17:02:45Z")
External Email - Use Caution hi, Did you look at the statistics image that get thresholded ? I doubt any of us has the time to edit your script to test it on a public dataset. Can you try to make a minimal example that uses a public dataset shared with MNE? Alex >         External Email - Use Caution > > Hi all, > > I have used \*spatio\_temporal\_cluster\_1samp\_test\* on my > time-frequency data (power (EpochsTFR) with a shape:[epochs X chan X freqs > X time] ). I have read the cited paper (MarisOostenveld07) for the > permutation tests. However, it is still not clear to me what these > functions are exactly doing. I have confused about the cluster analysis > after seeing my plots. I have attached parts of my code and my results to > this email. > [image: timefreq\_stat.png] > The first row shows the power activities and the second row shows the > p-values of the cluster analysis (red points are significant points). I > would be thankful if someone can give me some general explanation of these > functions. Is it normal to see a high non-significant activity and low but > significant activity based on the permutation cluster analysis? > > Thank you, > > \_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_\_ > Mne\_analysis mailing list > Mne\_analysis at nmr.mgh.harvard.edu > [Mne\_analysis Info Page](https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis) -------------- next part -------------- An HTML attachment was scrubbed... URL: [http://mail.nmr.mgh.harvard.edu/pipermail/mne\_analysis/attachments/20190503/4105d6b7/attachment-0001.html](http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20190503/4105d6b7/attachment-0001.html) -------------- next part -------------- A non-text attachment was scrubbed... Name: timefreq\_stat.png Type: image/png Size: 478930 bytes Desc: not available Url : [http://mail.nmr.mgh.harvard.edu/pipermail/mne\_analysis/attachments/20190503/4105d6b7/attachment-0001.png](http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20190503/4105d6b7/attachment-0001.png) ---
**Author:** ![system](https://global.discourse-cdn.com/free1/uploads/mne/original/1X/85cc6bd2b69cb698a166dc6d880fb550510d0144.jpeg) [@system](https://mne.discourse.group/u/system)\ **Post date:** [May 3, 2019, 7:38pm UTC](https://mne.discourse.group/t/cluster-analysis-for-time-frequency-data/1831/3 "2019-05-03T19:38:24Z")
External Email - Use Caution Hi Alex, Thanks for the response. I have edited the code and used one of the public datasets (eegbci). The .py code has also been attached. Thank you, -Mary