Dear FSL experts,
I would like to run Dual Regression with an F-test included and I understand that one way for doing so is to skip randomise by using 0 as number of permutations when invoking dual_regression, and then run randomise manually. Based on what I have read, this is done by running randomise on the output from stage 2 dual regression (dr_stage2_ic[#ICA].nii.gz), whilst including the option -f (.fts) in addition to the .mat and .con to the randomise command.
I am struggling though to grasp how the actual randomise command should look like and what files I should specify in the command.
I suppose this would be the command:
randomise -i <4D_input_data> -o <output_rootname> -d design.mat -t design.con -f design.fts -m <mask_image> -n 5000 -T
But what is then my 4D_input_data? Is it the dr_stage2_ic[#ICA].nii.gz? If so, should I then run multiple randomise commands to test for any effects in any of the 20 IC's/networks I am interested in (so 20 individual randomise tests)?
Also, what will be my -m mask??
And finally, would you recommend using the --twopass option?
PS. I know that editing the dual regression bin file would be easier but that is not a possibility in my case (working on a cluster with no permission to adjust fsl bin files)
Thanks for the input!!
Regards,
Mauro
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