Size: 7489
Comment:
|
Size: 6867
Comment:
|
Deletions are marked like this. | Additions are marked like this. |
Line 2: | Line 2: |
<<HTML(<img align="right" alt="archildrens.png" class="attachment" src="/brainstorm/WorkshopArkansas2024?action=AttachFile&do=get&target=archildrens.png" title="archildrens_logo.png" style="width: 45%;">)>> | <<HTML(<img align="right" alt="ParkCityConference" class="attachment" src="/brainstorm/WorkshopParkCity2024?action=AttachFile&do=get&target=park_city_logo.png" title="park_city_logo.png" style="width: 50%;">)>> |
Line 4: | Line 4: |
Half-day workshop as part of the International Conference on Artificial Intelligence in Epilepsy and Neurological Disorders in Park City https://www.aiepilepsy-neuro.com/. This session will be an introduction to Brainstorm features for sEEG analysis. Participants will learn how to use Brainstorm and access its new tools on their personal laptops. |
Full-day of lectures and a workshop on Brainstorm as part of the International Conference on [[https://www.aiepilepsy-neuro.com/|Artificial Intelligence in Epilepsy and Neurological Disorders in Park City]]. This session will be an introduction to Brainstorm features for sEEG analysis. Participants will learn how to use Brainstorm and access its new tools on their personal laptops. |
Line 10: | Line 11: |
<<HTML(<TR><TD>)>>'''Where'''<<HTML(</TD><TD>)>> [[https://www.archildrens.org|Arkansas Children's Hospital]]<<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>>'''Where'''<<HTML(</TD><TD>)>> [[https://www.aiepilepsy-neuro.com/content.aspx?e=1658&c=17242&culture=en-US|Park City]]<<HTML(</TD></TR>)>> |
Line 12: | Line 13: |
<<HTML(<TR><TD>)>>'''When'''<<HTML(</TD><TD>)>>January 24-26, 2023, 9:00-17:00<<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>>'''When'''<<HTML(</TD><TD>)>>April 1st, 2024, 8:30-17:00<<HTML(</TD></TR>)>> |
Line 14: | Line 15: |
<<HTML(<!--<TR><TD>)>>'''Registration'''<<HTML(</TD><TD>)>> [[https://redcapwap.archildrens.org/redcap/surveys/?s=WRT4WCC4PH4P9RF3|Please visit this page]]. <<HTML(</TD></TR>-->)>> | <<HTML(<TR><TD>)>>'''Registration'''<<HTML(</TD><TD>)>> [[https://www.aiepilepsy-neuro.com/register.aspx?e=1658&culture=en-US|Please visit this page]]. <<HTML(</TD></TR>)>> |
Line 16: | Line 17: |
<<HTML(<TR><TD>)>>'''Organizers'''<<HTML(</TD><TD>)>>[[https://www.archildrens.org/research/researchers/diana-escalona-vargas|Diana Escalona-Vargas]]<<BR>> (Arkansas Children's Hospital, USA)<<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>>'''Organizers'''<<HTML(</TD><TD>)>>''' '''[[https://www.aiepilepsy-neuro.com/|AI EPILEPSY 2024]] <<BR>> <<HTML(</TD></TR>)>> |
Line 18: | Line 19: |
<<HTML(<TR><TD>)>>'''Instructors'''<<HTML(</TD><TD>)>>[[AboutUs/SylvainBaillet|Sylvain Baillet]] and [[AboutUs/RaymundoCassani|Raymundo Cassani]] <<BR>> (Montreal Neurological Institute / McGill, Canada)<<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>>'''Instructors'''<<HTML(</TD><TD>)>> [[https://neuroimage.usc.edu/brainstorm/AboutUs/JohnMosher|John Mosher]], [[https://neuroimage.usc.edu/brainstorm/AboutUs/tmedani|Takfarinas Medani]] and TBA <<BR>> (UTH/USC, USA)<<HTML(</TD></TR>)>> |
Line 20: | Line 21: |
<<HTML(<TR><TD>)>>'''Audience'''<<HTML(</TD><TD>)>>Users interested in analyzing MEG/EEG recordings using Brainstorm.<<BR>>Some experience with MEG/EEG is recommended. Teaching in English.<<BR>>Number of participants: XX <<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>>'''Audience'''<<HTML(</TD><TD>)>>Users interested in analyzing sEEG/ECOG recordings using Brainstorm.<<BR>>Some experience with iEEG and signal processing is recommended. Teaching in English.<<BR>>Number of participants: XX <<HTML(</TD></TR>)>> |
Line 22: | Line 23: |
<<HTML(<!--<TR><TD>)>>'''Slides'''<<HTML(</TD><TD>)>> [[https://box.bic.mni.mcgill.ca/s/XXXXXXXX|Intro slides]] | [[https://box.bic.mni.mcgill.ca/s/XXXXXXXX|Lectures slides]] | [[https://box.bic.mni.mcgill.ca/s/XXXXXXXX|Walkthrough]] | [[https://forms.gle/XXXXXXXX|Survey]]<<HTML(</TD></TR>-->)>> | <<HTML(<TR><TD>)>>'''Slides'''<<HTML(</TD><TD>)>> '''TBD''' [[https://box.bic.mni.mcgill.ca/s/XXXXXXXX|Intro slides]] | [[https://box.bic.mni.mcgill.ca/s/XXXXXXXX|Lectures slides]] | [[https://box.bic.mni.mcgill.ca/s/XXXXXXXX|Walkthrough]] | [[https://forms.gle/XXXXXXXX|Survey]]<<HTML(</TD></TR>)>> |
Line 34: | Line 35: |
TBD | '''TBD''' |
Line 47: | Line 48: |
=== Day 1 === | === April 1st === |
Line 50: | Line 51: |
<<HTML(<TR><TD>)>>08:30-09:00<<HTML(</TD><TD>)>> Onsite assistance in installing the material for the training session<<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>> 09:30-10:00<<HTML(</TD><TD>)>> |
Line 52: | Line 53: |
<<HTML(<TR><TD>)>>09:00-10:00<<HTML(</TD><TD>)>>'''Introduction to Brainstorm''' ''(lecture R. Cassani)''<<HTML(</TD></TR>)>> | Registration, check in<<HTML(</TD></TR>)>> |
Line 54: | Line 55: |
<<HTML(<TR><TD>)>>10:00-11:00<<HTML(</TD><TD>)>>'''Loading anatomy and recordings''' | <<HTML(<TR><TD>)>>10:00-10:05<<HTML(</TD><TD>)>> |
Line 56: | Line 57: |
Brainstorm database | Introduction to Workshop–'''Richard Leahy''', USA<<HTML(</TD></TR>)>> |
Line 58: | Line 59: |
Set anatomy | <<HTML(<TR><TD>)>>10:05-10:35<<HTML(</TD><TD>)>> |
Line 60: | Line 61: |
Review RAW recordings | SEEG and the Human Brain Project-'''Philippe Ryvlin''', Switzerland<<HTML(</TD></TR>)>> |
Line 62: | Line 63: |
Events | <<HTML(<TR><TD>)>>10:35-11:05<<HTML(</TD><TD>)>> BioPhysics of SEEG-'''John Mosher''', USA<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>11:05-11:35<<HTML(</TD><TD>)>> Source Localization on Brainstorm-'''Manish Shah''', USA<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>11:35-12:05<<HTML(</TD><TD>)>> SEEG and Multimodality Clinical Applications in Brainstorm–'''Jay Gavalla''', USA<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>12:05-13:15<<HTML(</TD><TD>)>> '''Lunch Break'''<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>12:30-13:15<<HTML(</TD><TD>)>> |
Line 66: | Line 83: |
<<HTML(<TR><TD>)>>11:00-12:00<<HTML(</TD><TD>)>>'''Pre-processing''' | <<HTML(<TR><TD>)>>13:15-13:45<<HTML(</TD><TD>)>> |
Line 68: | Line 85: |
Frequency filters | Lecture: Brainstorm overview'''-Sylvain Baillet''', Canada |
Line 70: | Line 87: |
Artifact detection | Software structure, typical data workflow |
Line 72: | Line 89: |
Artifact correction with SSP | Presentation of the example dataset (BIDS-iEEG) |
Line 76: | Line 93: |
<<HTML(<TR><TD>)>>12:00-13:00<<HTML(</TD><TD>)>>''Lunch''<<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>>13:45-14:65<<HTML(</TD><TD>)>> |
Line 78: | Line 95: |
<<HTML(<TR><TD>)>>13:00-14:30<<HTML(</TD><TD>)>>'''Events and epoching''' | [[https://neuroimage.usc.edu/brainstorm/WorkshopLA2023|Tutorial – Hands-On Brainstorm]] |
Line 80: | Line 97: |
Events functions | <<HTML(<TR><TD>)>>13:45-14:45<<HTML(</TD><TD>)>> |
Line 82: | Line 99: |
Import epochs and sensor averages | '''Anatomy''' Database explorer MRI volumes, surfaces Anatomical parcellations Coregistration of pre- and post-implantation images |
Line 86: | Line 111: |
<<HTML(<TR><TD>)>>14:30-15:00<<HTML(</TD><TD>)>> '''Spectral and time-frequency analysis of MEG/EEG signals''' ''(lecture S. Baillet)''<<HTML(</TD></TR>)>> | <<HTML(<TR><TD>)>>14:45-15:45<<HTML(</TD><TD>)>> |
Line 88: | Line 113: |
<<HTML(<TR><TD>)>>15:00-16:30<<HTML(</TD><TD>)>>'''Time-frequency analysis''' | '''SEEG recordings''' |
Line 90: | Line 115: |
Time-frequency representation of EEG/MEG signals | Reviewing continuous SEEG recordings Montages and management of event markers Marking SEEG contacts on post-implantation image Anatomical labeling of SEEG contacts <<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>15:45-16:45<<HTML(</TD><TD>)>> '''Advanced topics - Based on participants' requests''' Time-frequency analysis: Identification of ictal HFO frequency bands Epileptogenicity maps: Localization of the seizure onset zone and propagation pathways FEM demo: MRI segmentation, tissue anisotropy with DTI, FEM forward modeling Open discussion with Brainstorm users |
Line 96: | Line 141: |
=== Day 2 === <<HTML(<TABLE>)>> <<HTML(<TR><TD>)>>08:30-09:00<<HTML(</TD><TD>)>>'''Source modelling''' ''(Lecture S. Baillet)''<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>09:00-10:45<<HTML(</TD><TD>)>>'''Sources estimation''' Forward model (aka Head model) Noise covariance matrix Source estimation (surfaces and volume source spaces) Cortex parcellations: Atlases and Scouts <<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>10:45-12:00<<HTML(</TD><TD>)>>'''Subject level statistics''' Statistics, sensor space Statistics, source space <<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>12:00-13:00<<HTML(</TD><TD>)>>'''ACRI Visiting Scholars Research Seminar''' ''(Lecture S. Baillet)'' <<BR>> Lunch will be provided <<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>13:00-14:30<<HTML(</TD><TD>)>>'''Subject level analysis''' Subject averages (sensors, time-frequency and sources) Within subject differences <<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>14:30-16:00<<HTML(</TD><TD>)>>'''Group level analysis''' Preparing sensor, time-frequency and sources data <<HTML(</TD></TR>)>> <<HTML(</TABLE>)>> === Day 3 === <<HTML(<TABLE>)>> <<HTML(<TR><TD>)>>09:00-09:30<<HTML(</TD><TD>)>>'''Connectivity & resting-state & evoked response''' ''(Lecture S. Baillet)''<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>09:30-10:00<<HTML(</TD><TD>)>>'''Connectivity''' Functional connectivity <<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>10:00-11:00<<HTML(</TD><TD>)>>'''Beyond the GUI''' Scripting GitHub <<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>11:00-12:00<<HTML(</TD><TD>)>>'''Participants working with their own data'''<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>12:00-13:00<<HTML(</TD><TD>)>>''Lunch''<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>12:00-15:30<<HTML(</TD><TD>)>>'''Participants working with their own data'''<<HTML(</TD></TR>)>> <<HTML(<TR><TD>)>>15:30-16:00<<HTML(</TD><TD>)>>'''Wrap-up''' <<HTML(</TABLE>)>> |
End of the workshop, main conference begins at 6pm |
Line 169: | Line 144: |
The last session will be mostly dedicated to addressing participants' requests. We encourage you to bring in your own sample of MEG/EEG data that you would be interested in processing with Brainstorm. We may ask that you pair with other attendees, for logistics purposes. | The last session will be mostly dedicated to addressing participants' requests. We encourage you to bring in your own sample of data that you would be interested in processing with Brainstorm. We may ask that you pair with other attendees, for logistics purposes. |
Line 178: | Line 153: |
For any technical problem, please contact Takfarinas Medani( [[mailto:raymundo.cassani@mcgill.ca|medani@usc.edu]] ) or Raymundo Cassani ( raymundo.cassani@mcgill.ca ) |
Park City, Utah, USA: April 1st, 2024
Full-day of lectures and a workshop on Brainstorm as part of the International Conference on Artificial Intelligence in Epilepsy and Neurological Disorders in Park City. This session will be an introduction to Brainstorm features for sEEG analysis.
Participants will learn how to use Brainstorm and access its new tools on their personal laptops.
General information
Where | Park City |
When | April 1st, 2024, 8:30-17:00 |
Registration | Please visit this page. |
Organizers | AI EPILEPSY 2024 |
Instructors | John Mosher, Takfarinas Medani and TBA (UTH/USC, USA) |
Audience | Users interested in analyzing sEEG/ECOG recordings using Brainstorm. Some experience with iEEG and signal processing is recommended. Teaching in English. Number of participants: XX |
Slides | TBD Intro slides | Lectures slides | Walkthrough | Survey |
Requirements
In order to make the workshop as efficient as possible, we ask all the attendees to: download, install and test the software and download the workshop dataset on their laptops prior to the workshop.
Installing Brainstorm
Please read carefully the following instructions on:
preparing your laptop for the training
Program
April 1st
09:30-10:00 | Registration, check in |
10:00-10:05 | Introduction to Workshop–Richard Leahy, USA |
10:05-10:35 | SEEG and the Human Brain Project-Philippe Ryvlin, Switzerland |
10:35-11:05 | BioPhysics of SEEG-John Mosher, USA |
11:05-11:35 | Source Localization on Brainstorm-Manish Shah, USA |
11:35-12:05 | SEEG and Multimodality Clinical Applications in Brainstorm–Jay Gavalla, USA |
12:05-13:15 | Lunch Break |
12:30-13:15 | |
13:15-13:45 | Lecture: Brainstorm overview-Sylvain Baillet, Canada Software structure, typical data workflow Presentation of the example dataset (BIDS-iEEG) |
13:45-14:65 | |
13:45-14:45 | Anatomy Database explorer MRI volumes, surfaces Anatomical parcellations Coregistration of pre- and post-implantation images |
14:45-15:45 | SEEG recordings Reviewing continuous SEEG recordings Montages and management of event markers Marking SEEG contacts on post-implantation image Anatomical labeling of SEEG contacts |
15:45-16:45 | Advanced topics - Based on participants' requests Time-frequency analysis: Identification of ictal HFO frequency bands Epileptogenicity maps: Localization of the seizure onset zone and propagation pathways FEM demo: MRI segmentation, tissue anisotropy with DTI, FEM forward modeling Open discussion with Brainstorm users |
End of the workshop, main conference begins at 6pm
Bring your own data
The last session will be mostly dedicated to addressing participants' requests. We encourage you to bring in your own sample of data that you would be interested in processing with Brainstorm. We may ask that you pair with other attendees, for logistics purposes.
The file formats that can be read by Brainstorm are listed on the Introduction page. Please contact us in advance if you are not sure your dataset can be imported in Brainstorm. If you do not have data available, you may continue to use the tutorial dataset used in the present workshop.
Troubleshooting
For any technical problem, please contact Takfarinas Medani( medani@usc.edu ) or Raymundo Cassani ( raymundo.cassani@mcgill.ca )