ELSstudy

fMRI analysis for the ELS KIDMID task
Joshua Ryu; [email protected]

Codes for analysis:

Preprocessing

• SPM: prep_coregSPM.sh; preprocessing_spm.m
  
• Freesurfer: prep_segmentation.sh
  
• Convert freesurfer brain mask to nii: convertMgz2Nii.sh
  

Behavioral analysis:

• behaviorAnalysis: behaviorAnalysis.m
  

ROIs:

• Generate a list of ROIS from freesurfer: roiListGen.m
  
• Extract ROI: ROI_analysis.m;
  

GLM:

• Build design matrix: build_designMat.m
  
• Run GLM on ROIs: GLM_analysis.m
  
• Plot ROI timectourses and GLM model: roi_plottimecourses.m
  
• Statistical maps for each subject: is_ContrastMaps.m
  
  • SPM map, filtering based on R-squared or t-value
    
  • Beta histograms: distribution of betas for each ROI.
    
  • percent variance explained histogram
    
• Plotting function (using SPM): vis_ContrastMaps_plot.m
  
  • Needs the plotting folder and SPM12
    

Functional connectivity:

• Analysis: fConn_analysis.m
  
• Plotting: fConn_analysis_plot.m
  

Group analysis:

• Second-level analysis for contrasts: group_analysis.m
  
• Second-level analysis for connectivity: group_analysis_fConn.m
  
• Bar plots: group_plotResults.m