ECP MEG Data Folders: Difference between revisions
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==Folder Layout /rcc/stor1/projects/ECP/MEG/MEG_Work== | ==Folder Layout /rcc/stor1/projects/ECP/MEG/MEG_Work== | ||
All subjects have a folder with both the anatomy, RAW, tSSS, Preprocessed, and Processed Data | |||
[[file:ECP Subject.PNG|200px]] | |||
===Anatomy Layout=== | ===Anatomy Layout=== | ||
Typical Freesurfer layout with BEM process performed | Typical Freesurfer layout with BEM process performed | ||
The folder is always labelled Anatomy (a hack to make all folders homogeneous and easier to process) | |||
The Anatomy-trans.fif is created during the MNE python coregistration step | The Anatomy-trans.fif is created during the MNE python coregistration step | ||
[[file:ECP MEG Anatomy.png|400px]] | [[file:ECP MEG Anatomy.png|400px]] | ||
| Line 16: | Line 20: | ||
====Initialized===== | ====Initialized===== | ||
Initialization creates a subject pandas dataframe saved as a csv file in the aProjects folder at the top of the MEG Project folder | |||
Preproc Initialization creates a folder for each data type and creates a link to the original dataset | |||
Cleaning (baddata pipeline) performs ICA removal of heartbeat and eyeblink artifact that is correlated to EOG and ECG electrodes at a threshold of (r=???) | |||
[[file:Clean data.png|400px]] | |||
==RCC preprocessing== | ==RCC preprocessing== | ||
The data is then copied to a folder /rcc/stor1/projects/ECP/MEG/MEG_Work | The data is then copied to a folder /rcc/stor1/projects/ECP/MEG/MEG_Work | ||
[[image:Folder layout.png]] | [[image:Folder layout.png]] | ||
Revision as of 18:31, 10 June 2019
At the MEG lab:
Data is acquired to the MEG_acq/ecp/ folder Data is tSSS processed and organized into raw and tSSS folders Data is uploaded to to the RCC using scp (/rcc/stor1/projects/ECP/MEG/MEG_Orig) Data is copied into /rcc/stor1/projects/ECP/MEG/MEG_Work
Folder Layout /rcc/stor1/projects/ECP/MEG/MEG_Work
All subjects have a folder with both the anatomy, RAW, tSSS, Preprocessed, and Processed Data
Anatomy Layout
Typical Freesurfer layout with BEM process performed
The folder is always labelled Anatomy (a hack to make all folders homogeneous and easier to process)
The Anatomy-trans.fif is created during the MNE python coregistration step
Data Layout
RAW and tSSS
Initialized=
Initialization creates a subject pandas dataframe saved as a csv file in the aProjects folder at the top of the MEG Project folder
Preproc Initialization creates a folder for each data type and creates a link to the original dataset
Cleaning (baddata pipeline) performs ICA removal of heartbeat and eyeblink artifact that is correlated to EOG and ECG electrodes at a threshold of (r=???)
RCC preprocessing
The data is then copied to a folder /rcc/stor1/projects/ECP/MEG/MEG_Work
