Dear Lilla,
Sorry I am bother you one more time with a question: I was trying to display the dtrecon result smore exactly the GLM group analysis results. After I did the
mri_concat */fa-tal.nii --o group-fa-tal.nii
I created a mask: mri_concat */mask-tal.nii --o group-masksum-tal.nii --mean mri_binarize --i group-masksum-tal.nii --min .999 --o group-mask-tal.nii
then I ran the GLM Fit: mri_glmfit --y group-fa-tal.nii --mask group-mask-tal.nii\ --fsgd your.fsgd --C contrast --glmdir group_analysis.glmdir My questions are:
1) How I can display the uncorrected significance map values for the group analysis? What files should I use?
I checked the DTI basic tutorial and I was trying the following:
freeview -v /media/1Tra/Antonella_2011/DTI_FS/dtrecon/group-masksum-tal.nii \ /media/1Tra/Antonella_2011/DTI_FS/dtrecon/group_analysis.glmdir/contrast/sig.mgh:colormap=heat
Is this right? Or I should use the mask.mgh
2) If my contrast is C = +1.00000 -1.00000 (I am not accounting for age nor for gender) the what the colours represents and how I can get the p values for the forming clusters?
THANK YOU VERY MUCH! Antonella