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Dear SPM users, In SPM 8, I used an independent t-test to compare two genotype groups on a task, and I included a categorical covariate (control or patient) in the model. As an alternative, I also tried a full factorial with two factors, diagnosis and genotype. However, these tests give completely different results, and I'm not sure why. I set the full factorial as follows: Factor 1 (genotype): Levels - 2 Independence - Yes Variance - Unequal Factor 2 (diagnosis): Levels - 2 Independence - Yes Variance - Unequal If anyone has any advice it would be greatly appreciated. I've also included the design matrix for the full factorial model, perhaps there is a problem with it? Kind regards, Omar Mothersill -- Omar Mothersill Room 0.18 Neuropsychiatric Genetics Group Dept. of Psychiatry Trinity Centre for Health Sciences St. James's Hospital Dublin 8. Phone: 01 896 2464 Email: [log in to unmask]