matlab scripts for SCZ_treatment project

1. run fmriprep on server

S_run_fmriprep.sh

2. extract freesurfer(FS) output

S_FS_table.m

3. QC freesurfer output

check freesurfer output using ENIGMA-QC methods

4. Run fitlme model to calculate group and group-by-wave effects

S_FS_region_fitlme.m  
S_FS_region_fitlme_subgroup.m 

separate for medicated and unmedicated patients at recruitment

5. Gene expression of gene set of interests (GOI) using GAMBA

S_GE_GOI.m

6. Brain changes correlated with GOI

S_FS_corr_gene_expression.m
S_GE_spin.m

7. Peripheral inflammatory markers

S_blood_measure.m