Dear FSLusers,
I am fairly new to TBSS and would like to check if I am doing the correct thing! I am trying to do a paired t-test to look at structural changes in FA before and after an intervention in 9 lesion patients. I then want to correlate this to performance on an cognition task. I am aware that I have 2 options (1) subtracting FA images post-intervention from pre-intervention with fslmaths (2) create design and contrast files according to FEAT paired t-test manual (we chose for the latter for visualisation purposes)
My question is do I set up the struct-behav analysis matrix file the same as the structural analysis part (e.g. 10 EVs/columns) or do I just create 1 EV/column with cognition data (+additional columns for covariates) with the struct-behav analysis (and how do I know FSL "remembers" the within subjects group design of the structural part)?
Any help you could offer would be highly appreciated!
Best wishes,
Brigitte
For the structural analysis I have created contrast and matrix files according tp the FEAT manual:
/NumWaves 10
/NumPoints 18
/PPheights 2.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00
/Matrix
/NumWaves 10
/NumPoints 18
/PPheights 2.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00
/Matrix
1.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00
-1.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 1.000000e+00
/NumWaves 1
/NumPoints 18
/Matrix
1
2
3
4
5
6
7
8
9
1
2
3
4
5
6
7
8
9
/ContrastName1 preint - postint
/ContrastName2 postint - preint
/NumWaves 10
/NumContrasts 2
/PPheights 2.000000e+00 2.000000e+00
/RequiredEffect 5.446 5.446
/Matrix
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
For the functional analysis I am doubting between these 2 contrast matrixes (I used the same .grp file)
(1)
/NumWaves 1
/NumPoints 18
/PPheights 2.000000e+01
/Matrix
1.900000e+01
1.800000e+01
2.000000e+01
1.700000e+01
1.900000e+01
1.900000e+01
1.800000e+01
2.000000e+01
1.600000e+01
5.000000e+00
7.000000e+00
4.000000e+00
7.000000e+00
8.000000e+00
5.000000e+00
7.000000e+00
8.000000e+00
2.000000e+00
(2)
/NumWaves 10
/NumPoints 18
/PPheights 2.000000e+00 5.000000e+00 6.000000e+00 6.000000e+00 6.000000e+00 6.000000e+00 6.000000e+00 6.000000e+00 6.000000e+00 5.000000e+00
/Matrix
1.000000e+00 5.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 5.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 4.000000e+00 0.000000e+00
1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 5.000000e+00
-1.000000e+00 4.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 5.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 6.000000e+00 0.000000e+00
-1.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 0.000000e+00 5.000000e+00
########################################################################
To unsubscribe from the FSL list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
|