Difference between revisions of "Club MEG"

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Club MEG is our version of a journal club. We welcome NIH MEG researchers to lead discussions on any MEG topic, including interesting papers, experiment ideas, analysis techniques, or finding from your research.
Club MEG is our version of a journal club. We welcome NIH MEG researchers to lead discussions on any MEG topic, including interesting papers, experiment ideas, analysis techniques, or finding from your research.


Interested in presenting a topic? Email '''Fred Carver at carverf@nih.gov''' if you would like to present.
Interested in presenting a topic? Email '''Fred Carver at carverf@nih.gov''' or '''Jeff Stout at stoutjd@nih.gov''' if you would like to present.


Notifications of upcoming talks are sent to the [https://list.nih.gov/cgi-bin/wa.exe?A0=meg_announce MEG_ANNOUNCE] listserv.
Notifications of upcoming talks are sent to the [https://list.nih.gov/cgi-bin/wa.exe?A0=meg_announce MEG_ANNOUNCE] listserv.


== Upcoming Talks/Discussions ==
== Upcoming Talks/Discussions ==
* '''09/30/2022 at 1:00pm''' ML SIG: (Journal Club) - Tom Holroyd
* Amaia Benitez Andonegui, Topic and Date TBA
* '''10/07/2022 at 1:00pm''' Club MEG: (Journal Club) - Sarah Grewal
* '''10/14/2022 at 1:00pm''' Club MEG: MNE-ARI (All Resolutions Imaging) Theoretical Overview and Demo - John Veillette - (University of Chicago)
**https://github.com/john-veillette/mne-ari
* '''10/28/2022 at 1:00pm''' Club MEG: (Journal Club) - Sharif Kronemer
* '''11/18/2022 at 1:00pm''' Club MEG: (Journal Club) - Anna Namyst
* '''01/20/2023 at 1:00pm''' Club MEG: Lucrezia Liuzzi
* '''02/17/2023 at 1:00pm''' Club MEG: Gustavo Sudre
* '''Date TBD''' Club MEG: Abbas Babajani-Feremi - (University of Florida)


== Recent Talks/Discussions ==
== Recent Talks/Discussions ==
* '''09/16/2022''' Lindsay Oberman - Autism background, MEG autism biomarkers, interventional approach, and preliminary study results
*'''10/22/2021''' Stephen Robinson, Fundamentals of Beamformers.
** [https://pubmed.ncbi.nlm.nih.gov/25745372/ Prospective MEG biomarkers in ASD: pre-clinical evidence and clinical promise of electrophysiological signatures]
**Slides: [[Media:StephenRobinson SAM Beamforming Talk 10222021.pdf|SAM Beamforming Fundamentals]]
* '''09/15/2022''' Discuss Biomag 2022 Presentations
**Recording: [https://megcore.nih.gov/MEG/ClubMEG_Robinson_Beamforming_10222021.mp4 SAM Beamforming Fundamentals (mp4)]
* '''09/09/2022''' Anna Namyst and Jeff Stout - Eye Tracking

** https://jov.arvojournals.org/article.aspx?articleid=2772164
** https://www.biorxiv.org/content/10.1101/2021.07.09.451139v1.full.pdf
** Powerpoint to be uploaded soon --
* '''08/19/2022''' Kunjan Rana - Communication Between the Amygdala and Cortex in the Context of Face Processing
* '''08/05/2022''' Shruti Japee - Temporal Dynamics of Facial Expression Processing
**[https://megcore.nih.gov/MEG/ShrutiJapee_ClubMEG_FacialExpressionDecoding_08052022.mp4 Recording Download (mp4)]
* '''05/20/2022''' Priyanka Shah (Medical College of Wisconsin) - Resting Connectivity Changes in Temporal Lobe Epilepsy
**[https://megcore.nih.gov/MEG/PriyankaShah-Basak_ClubMEG_05202022.mp4 Recording Download (mp4)]
* '''05/13/2022''' Jess Gilbert - MEG Studies of Treatment-Resistant Depression and Ketamine Response
**[https://megcore.nih.gov/MEG/JessGilbert_ClubMEG_05132022.mp4 Recording Download (mp4)]
* '''04/29/2022''' Ethan Buch [https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay]
** [https://megcore.nih.gov/MEG/EthanBuch_HumanSkill_ClubMEG_04292022.mp4 Recording Download (mp4)]
* '''04/08/2022''' Allison Nugent [https://doi.org/10.1038/s42003-021-01785-z Temporal hierarchy of intrinsic neural timescales converges with spatial core-periphery organization]
** [https://megcore.nih.gov/MEG/AllisonNugent_ClubMEGJournal_04082022.mp4 Recording Download (mp4)]
* '''03/10/2022''' Stephen Robinson - Using Information Theory for MEG Studies
** [https://megcore.nih.gov/MEG/Robinson_InformationTheoryMEG_ClubMEG_03102022.mp4 Recording Download (mp4)]
* '''02/11/2022''' Megan Parker - [https://www.sciencedirect.com/science/article/pii/S000689931301500X?via%3Dihub Neural regulatory mechanism of desire for food: revealed by magnetoencephalography (article)]
* '''11/12/2021''' Amaia Benitez, From ECoG to Magnetocorticography: Optically Pumped Magnetometers for Non-Invasive, High Resolution Imaging
** [https://megcore.nih.gov/MEG/ClubMEG_111221_AmaiaBenitez_OPMs&MCog.mp4 Recording Download (mp4)]
**Slides: [[File:Pdf.png|PDF]] [[Media:ClubMeg ABA OPMs 111221.pdf|OPM and MCog Research Introduction]]
*'''10/22/2021''' Stephen Robinson, Fundamentals of Beamformers (mp4)
** [https://megcore.nih.gov/MEG/ClubMEG_Robinson_Beamforming_10222021.mp4 Recording Download (mp4)]
**Slides: [[File:Pdf.png|PDF]] [[Media:StephenRobinson SAM Beamforming Talk 10222021.pdf|SAM Beamforming Fundamentals]]
*'''10/23/2020''' Angela Wang and Tom Holroyd, Neurofeedback Discussion.
*'''10/23/2020''' Angela Wang and Tom Holroyd, Neurofeedback Discussion.
**Slides: [[Media:Neurofeedback_Review.pdf|Neurofeedback Review]]; [[Media:RT-MEG.pdf|Real-time Beamforming]].
**Slides: [[File:Pdf.png|PDF]] [[Media:Neurofeedback_Review.pdf|Neurofeedback Review]]; [[Media:RT-MEG.pdf|Real-time Beamforming]].

== Previous Tutorials and Training ==
*Connectivity Coding Zoom Call [[Meg_information_based_connectivity_coding_session]] - '''08/12/2022'''
*Andrea Brovelli & Etienne Combrisson, FRITES Theoretical Overview and Demo (Connectivity Calculation and Stats) - 07/13/2022 - (Institut de Neurosciences de la Timone)
**[https://megcore.nih.gov/MEG/FRITES_Tutorial_07132022.mp4 Recording Download (mp4)]
**[https://brainets.github.io/frites/ Website and Github Page] [https://github.com/brainets/CookingFrites Example Training Notebooks]
**[https://doi.org/10.1016/j.neuroimage.2022.119347 Paper: Group-level inference of information-based measures for the analyses of cognitive brain networks from neurophysiological data]
*[https://megcore.nih.gov/index.php?title=MEG_Hackathon_2022 MEG Hackathon ] 05/06/2022
*Eric Earl, Github Presentation and Discussion, 04/27/2022
**[https://docs.google.com/presentation/d/15l6Pb6pUICPSsJi3shWLiAJNlCkngHi0fzht7FKeyqM/edit?usp=sharing Presentation Slides] [https://slides.com/ericearl/gh-repo Advanced Github Features]
** [https://megcore.nih.gov/MEG/EricEarl_ClubMEG_GitHubTutorial_04272022.mp4 Recording Download (mp4)]
**Additional Links:
***[https://osf.io/xt6pk/ ReadTheDocs]
***[https://osf.io/qcyhu/ BioDataClub OSF]
*Jeff Stout, Intro to Git, 04/12/2022 -
**[https://megcore.nih.gov/MEG/JeffStout_GitTutorial_04122022.mp4 Recording Download]
**[https://megcore.nih.gov/MEG/JeffStout_GitTutorial_04122022_commands.txt Git Tutorial Commands ]
**Additional Links:
***[https://nbviewer.org/github/pelson/lessons_for_a_scientific_programmer/blob/master/2014-euroscipy/00_intro.ipynb Scientific Programming Guidelines - Including Git]
*Jeff Stout, Intro Python, 03/29/2022 - [https://megcore.nih.gov/MEG/JeffStout_PythonCoursePart2_03292022.mp4| Dictionaries/Functions/Scripts/Modules/commandline interface -- Recording Download (mp4)]
*Fred Carver & Jeff Stout, [[Tutorial stats 011422| Tutorial Link]] (01/21/22) -- MEG Group Data Analysis in AFNI and MNE Python
**[https://megcore.nih.gov/MEG/ClubMEG_Carver&Stout_MNE&AFNI-GroupAnalysisTutorial_012122.mp4 Recording Download (mp4)]
*Jeff Stout, [[MNE Python Tutorial 2021]] -- Introduction to MEG processing with MNE Python
*NIMH MEG Core Staff, [[NIH MEG Short Course 2018]] -- Useful training materials.

== Special Interest Groups ==


[https://megcore.nih.gov/index.php?title=Machine_Learning_SIG '''Machine Learning Special Interest Group'''] (ML SIG) - 4th Friday of every month 1-2pm. Contact Jeff Stout for more information on joining or presenting.</br>
== Recent Tutorials ==
'''''Prior ML SIG topics:'''''
* '''05/27/2022''' Jeff Stout - [https://www.sciencedirect.com/science/article/pii/S1053811921006777 MEGnet: Automatic ICA-based artifact removal for MEG using spatiotemporal convolutional neural networks]
**[https://megcore.nih.gov/MEG/JeffStout_MEGnetOverview_ML-SIG_05292022.mp4 Recording Download (mp4)]
*'''04/15/2022''' Leonardo Claudino - Decoding Pipeline <ref> https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay Ethan R. Buch, Leonardo Claudino, Romain Quentin, Marlene Bönstrup, Leonardo Cohen</ref><ref>https://github.com/hcps-ninds/Replay ANALYSIS CODE: Consolidation of human skill linked to waking hippocampo-neocortical replay </ref>
** [https://megcore.nih.gov/MEG/LeoClaudino_DecodingPipeline_MEG-ML-SIG_04152022.mp4 Recording Download (mp4)]
*'''03/25/2022''' Mina Kheirkhah Rahimabadi - Classification of brain responses to emotional image stimuli measured with MEG
*'''03/04/2022''' Dave Dash - Decoding speech with MEG <ref>Dash D, Ferrari P, Wang J. Decoding Imagined and Spoken Phrases From Non-invasive Neural (MEG) Signals. Front Neurosci. 2020;14:290. Published 2020 Apr 7. doi:10.3389/fnins.2020.00290</ref> <ref>Dash D, Wisler A, Ferrari P, Davenport EM, Maldjian J, Wang J. MEG Sensor Selection for Neural Speech Decoding. IEEE Access. 2020;8:182320-182337. doi:10.1109/access.2020.3028831</ref> <ref>Dash D, Ferrari P, Dutta S, Wang J. NeuroVAD: Real-Time Voice Activity Detection from Non-Invasive Neuromagnetic Signals. Sensors (Basel). 2020;20(8):2248. Published 2020 Apr 16. doi:10.3390/s20082248</ref>
**[https://megcore.nih.gov/MEG/DebadattaDash_MEG-SpeechDecoding_ClubMEG_03042022.mp4 Recording Download (mp4)]
*'''01/28/2022''' Lina Teichmann - Bayes Factors for Time-series Decoding
**[https://megcore.nih.gov/MEG/Teichmann_MEGMachineLearningSIG_BayesFactorsTimeSeriesDecoding_01282022.mp4 Teichmann 01/28/22 Recording Download (mp4)]
** Slides: [[File:Pdf.png|PDF]] [https://megcore.nih.gov/MEG/Teichmann_BayesFactors_ClubMEG_01282022.pdf Bayes Factors for Time-Series Decoding]
** [https://www.biorxiv.org/content/10.1101/2021.06.23.449663v3.abstract Journal Article] and [https://github.com/LinaTeichmann1/BFF_repo Associated Code]
*'''12/03/2021''' Initial meeting for Machine Learning in MEG SIG - Journal Club discussion: [https://pubmed.ncbi.nlm.nih.gov/28782682/ Deconstructing multivariate decoding for the study of brain function]


==References==
*Jeff Stout, [[MNE Python Tutorial 10 01 21]]

Latest revision as of 12:39, 27 September 2022

Club MEG is our version of a journal club. We welcome NIH MEG researchers to lead discussions on any MEG topic, including interesting papers, experiment ideas, analysis techniques, or finding from your research.

Interested in presenting a topic? Email Fred Carver at carverf@nih.gov or Jeff Stout at stoutjd@nih.gov if you would like to present.

Notifications of upcoming talks are sent to the MEG_ANNOUNCE listserv.

Upcoming Talks/Discussions

  • 09/30/2022 at 1:00pm ML SIG: (Journal Club) - Tom Holroyd
  • 10/07/2022 at 1:00pm Club MEG: (Journal Club) - Sarah Grewal
  • 10/14/2022 at 1:00pm Club MEG: MNE-ARI (All Resolutions Imaging) Theoretical Overview and Demo - John Veillette - (University of Chicago)
  • 10/28/2022 at 1:00pm Club MEG: (Journal Club) - Sharif Kronemer
  • 11/18/2022 at 1:00pm Club MEG: (Journal Club) - Anna Namyst
  • 01/20/2023 at 1:00pm Club MEG: Lucrezia Liuzzi
  • 02/17/2023 at 1:00pm Club MEG: Gustavo Sudre
  • Date TBD Club MEG: Abbas Babajani-Feremi - (University of Florida)

Recent Talks/Discussions

Previous Tutorials and Training

Special Interest Groups

Machine Learning Special Interest Group (ML SIG) - 4th Friday of every month 1-2pm. Contact Jeff Stout for more information on joining or presenting.
Prior ML SIG topics:

References

  1. https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay Ethan R. Buch, Leonardo Claudino, Romain Quentin, Marlene Bönstrup, Leonardo Cohen
  2. https://github.com/hcps-ninds/Replay ANALYSIS CODE: Consolidation of human skill linked to waking hippocampo-neocortical replay
  3. Dash D, Ferrari P, Wang J. Decoding Imagined and Spoken Phrases From Non-invasive Neural (MEG) Signals. Front Neurosci. 2020;14:290. Published 2020 Apr 7. doi:10.3389/fnins.2020.00290
  4. Dash D, Wisler A, Ferrari P, Davenport EM, Maldjian J, Wang J. MEG Sensor Selection for Neural Speech Decoding. IEEE Access. 2020;8:182320-182337. doi:10.1109/access.2020.3028831
  5. Dash D, Ferrari P, Dutta S, Wang J. NeuroVAD: Real-Time Voice Activity Detection from Non-Invasive Neuromagnetic Signals. Sensors (Basel). 2020;20(8):2248. Published 2020 Apr 16. doi:10.3390/s20082248