FMRI

MEICA and Tedana

The following pipeline describes processing steps for multi-echo ICA (ME-ICA) data, as agreed by Manfred, Frantisek and others in May 2018. This is the pipeline applied to NSPN and BioDep projects.

Briefly, the processing pipeline includes the following steps:

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The specific ME-ICA script to be run is located on the BCNI server at: "/home/rr480/Code/MATLAB/fMRI/MEICA/meica_manfred_2018_05_10/meica.py". This includes the options listed below (some of which are specific to NSPN data). For a detailed description of all processing steps, see MEICA.

 -d 'echo[1,2,3].nii'  
 -a 'brainmask.nii' 
 -e 13.0,30.55,48.1 
 --TR=2.43 
 --tpattern=seq-z 
 -b 15s 
 --fres=2.5 
 --mask_mode='anat' 
 --no_skullstrip 
 --OVERWRITE