Dear FSL experts,
I still have a question about using feat_gm_prepare as a EV in randomise. I did the preprocessing of all EPI images including FLIRT and FNIRT (as it is implemented in Melodic). Afterwards I ran the command feat_gm_prepare 4D-GM-output ICA1.ica ICA2.ica ICAx.ica….. I smoothed the 4D-GM-output using fslmaths.
I posted my resulting 4D-GM-output image:
http://registrationchristianej.blogspot.de/2015/02/featgmprepare.html
The images show that my 4D-GM-output.nii extend the boarders of the MNI152 template. Does this make sense, or did I do something wrong in my Analysis?
I would like to use the 4D-GM-output as a voxelwise EV in randomise. I do not use the GUI. I have one group of subjects with some behavioral EVs and the 4D-GM-output. I am only interested in the effects of EV2 while I would like to use the 4D-GM-output as a confounding regressor.
Design.mat
Group (EV1) Reaction time (EV2) 4D-GM-output (EV3)
1.000000E+00 -4.452247E-01 1.000000E+00
1.000000E+00 -5.452247E-01 1.000000E+00
1.000000E+00 -6.452247E-01 1.000000E+00
1.000000E+00 6.452247E-01 1.000000E+00
1.000000E+00 5.452247E-01 1.000000E+00
1.000000E+00 4.452247E-01 1.000000E+00
Design.con
0.000000E+00 1.000000E+00 0.000000E+00
0.000000E+00 -1.000000E+00 0.000000E+00
randomise -i melodic_IC.nii.gz -o output -d design.mat (see above, with EV3 being the column for the voxelwise regressor) -t design.con --vxl=3 --vxf=4D-GM-output -n 5000 –T
Is this the right setup? Is it correct to include only "1.000000E+00"s in the third column (EV3)?
Thank you very much in advance
All the best
Christiane
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