External Email - Use Caution Dear Freesurfer team,
My colleagues and I performed a general linear model with FreeSurfer mri_glmfit for whole brain analysis in intergroup comparison (g2v1) with a Monte-Carlo correction. I'd like to get the effect size of the analysis and I was wondering how could I get the eta squared or R2? I I also saw that the gamma.mgh file was the contrast effect size. Could this be used as an effect size for this type of analysis? I was also wondering if it was possible to plot the results from the GLM and getting a linear regression with the ROI as the y axis and neuropsychiatric symptom severity on the x axis and displaying both groups (Alzheimer vs Mild cognitive impairment) in one plot? If it is possible, how can I do this? I found a plotting script (https://secure-web.cisco.com/1J2MTZ3C6wunLISy_F5rLCagiGKjtD_DqkJHs5AfuTnjbX5YnOSMS87xomwZzo0c6jkfOcF6shf2epePg5WEjdFZykYV3YXqBjG9w-RJT9TQjfSE7L-AIO1oPskQXd4xsDX2XYeA0ZUovB0KfoPpJhrw36f7b3Kg34LAh2VBV0ojbY6-8KicDocEkobcX9uFNeST5aRpLeZ5x-zSCXVaqgJ4MTLtAUssxHJyFRWvpbobNGZj4sWTki_DNy6HcyAy6V21HzlYVpk_loCUQoHsBJ0DarQnxN_uP-NLFJG0WzTgWJKNRh0Nx-9JRlVzF60Qb/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FVisualization), but it was for FDR corrected, not Monte-Carlo. Finally, I was also wondering how could I display a heat map or gradient shading based on neuropsychiatric symptoms severity on the image from the significant regions I got from the GLM with freeview? Thank you in advance! Lyna El Haffaf Graduate student in neuropsychology University of Montreal
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