Dear Fsl Users,
I have a randomise question concerning siena results.
I have 2 groups:
- young (n= 24)
- old (n=23),
both scanned at 2 time points.
I'm interested in differences in brain volume changes between these two groups.
I have run siena and flow2std on all of my subjects, and performed randomise on the flow_all_subjects.nii.gz as follows:
randomise -i flow_all_subjects.nii.gz -o TwoSampT -d matrix47.mat -t matrix47.con -m avg152T1_brain.nii.gz
1. the first question I have: may I use avg152T1_brain.nii.gz instead of producing my own mask, and if not, how do I produce a mask. Is this equal with constructing a template for VBM analysis?
2. I have created the design matrix using the GLM_Gui, and am not sure if it's exactly the matrix I need.
matrix47.con:
/ContrastName1 group A > group B
/ContrastName2 group B > group A
/ContrastName3 group A mean
/ContrastName4 group B mean
/NumWaves 2
/NumContrasts 4
/PPheights 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00
/RequiredEffect 1.211 1.211 0.847 0.866
/Matrix
1.000000e+00 -1.000000e+00
-1.000000e+00 1.000000e+00
1.000000e+00 0.000000e+00
0.000000e+00 1.000000e+00
matrix47.mat:
/NumWaves 2
/NumPoints 47
/PPheights 1.000000e+00 1.000000e+00
/Matrix
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
0.000000e+00 1.000000e+00
3. randomise gave me 3 types of output files, and I understand the basic meaning of those results, I only cannot figure out, which file goes with which specific question.
I have
TwoSampT_max_tstat1.nii.gz
TwoSampT_max_tstat2.nii.gz
TwoSampT_max_tstat3.nii.gz
TwoSampT_max_tstat4.nii.gz
TwoSampT_tstat1.nii.gz
TwoSampT_tstat2.nii.gz
TwoSampT_tstat3.nii.gz
TwoSampT_tstat4.nii.gz
and
TwoSampT_vox_tstat1.nii.gz
TwoSampT_vox_tstat2.nii.gz
TwoSampT_vox_tstat3.nii.gz
TwoSampT_vox_tstat4.nii.gz
Looking forward to some answers, as I'm a bit lost...
Greetings,
Shireen Kwiatkowska
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