ECP MEG Data Folders

At the MEG lab:

Data is acquired to the MEG_acq/ecp/ folder
Data is tSSS processed and organized into raw and tSSS folders (the format of the data can be seen below)

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 for further processing

Folder Layout /rcc/stor1/projects/ECP/MEG/MEG_Work

All subjects have a folder with the following folders: Anatomy, RAW, tSSS, Process_*DataType*

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

The data is labelled with Subjid+_+DataType+_run+RunNumber+_raw.fif 

Processing

Initialization

init_subject_dataframe - initialization creates a subject pandas dataframe saved as a csv file in the aProjects folder at the top of the MEG Project folder



The Contents of the subject dataframe are stored in a .csv file which can be opened using LibreOffice

Processing

A set

Cleaning

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