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Hi Douglas,
Here is the command line: mri_glmfit \ --y rh.thickness-rate.MyStudy.10.mgh \ --fsgd FSGD/MyStudy.fsgd dods\ --C Contrasts/Case-Control_age_gender_race_etiv.mtx\ --surf fsaverage rh \ --cortex \ --glmdir rh.thickness-rate.MyStudy.10.mgh_age_gender_race_etiv.glmdir \ --eres-save
Also error message in terminal: gdfRead(): reading FSGD/MyStudy.fsgd WARNING: variable 1 is "Gender" which is often a discrete factor The proper way to handle discrete factors is to create classes. See https://secure-web.cisco.com/1NHVxBIRnha6EjEdEho81-VE9d-vjJ6ivzt10z28vhX9c94... ERROR: gdfReadV1: Format Error: Input line 1, subjid = sub001_base Variable 2 has character string Female Variables should be continuous numbers FSGDF Format Error: file = FSGD/MyStudy.fsgd, tag=Input
Also attached FSGD file below. Thank you so much for the help!
Best, Zeng
On Wed, Nov 10, 2021 at 5:41 PM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
please send your command line and full terminal output as well as the fsgd file
On 11/10/2021 5:12 PM, Zeng, Qi wrote:
External Email - Use CautionHi Freesurfer experts,
Here, I want to design a simple group comparison (two levels: Case vs. Control) and also count for 4 covariates (two continuous and two categoricals). However, the GLM model cannot recognize my discrete variables. What do you suggest to change?
FSDG file:
GroupDescriptorFile 1 Title MyStudy Class Control Class Case Variables age gender race eTIV Input sub001_base Control 85 Female White 1350519 Contrast:
Design matrix for Case-Control and regress out the effect of age,
gender, race, and eTIV. -1 1 0 0 0 0 0 0 0 0
Best, Zeng
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