Hello,
I ran cortical thickness analyses using the following contrast and fsgd. After that, I corrected for multiple comparison using monte carlo 5000 with cluster forming threshold of 2 and unsigned/2-tailed t-test (abs). I wanted to confirm my interpretation of the results.
1) Since my contrast is (-1 1 0 0 representing control>stroke), it should be red/yellow and if blue, it should be control<stroke. However, I see clusters with colors different from the aformentioned (see attached screenshot). How should I interpret them?
2) I want to view the uncorrected p-values, which of the columns in the summary text file should I concentrate, and should the p < or > 0.05?
3) Looking at the CWP column in the summary text file, can I conclude that the obtained regions/clusters are significant? This is because non of the cluster-wise p-values are below 0.05 (--cwp 0.05).
4) Which of the columns represent the sign of my contrast i.e. where Control>Stroke and Control<Stroke because i used abs? Max?
FSGD file GroupDescriptorFile Title StrokevsControl Class1 Stroke Class2 Control Variable bmi Input 6001 Stroke 20 Input 8001 Control 30
Contrast: -1 1 0 0 (Control>Stroke removing the effects of bmi)
Thank you, Paul
