ICCb through 3dLME

AFNI Message Board
1

Hi everyone and thank you for maintaining this wonderful community.
I am trying to compare the same 5 subjects scanned on two different 3T scanners with similar resting state fMRI sequence.
Reading the excellent paper of Gang et al. (https://doi.org/10.1002/hbm.23909 ) I decided to use 3dLME with the option -ICCb (below is part of my script) to compare ReHo maps across scanners:
3dLME -prefix reml1 -jobs 12
-model “1”
-ranEff ‘Subj+Scanner’
-ICCb
-dataTable
Subj Scanner InputFile
(…)

This runs correctly and when I open in AfNI the brick, I select Subject as 0Lay and Thr I choose Scanner, then I move the slider bar up to .5 and look at the results. Does this approach sound pertinent to you?
thank you a lot

2

I select Subject as 0Lay and Thr I choose Scanner, then I move the slider bar up to .5 and look
at the results. Does this approach sound pertinent to you?

3dLME computes ICC(2,1), which is the Subject sub-brick in the output. So, you should set both OLay and Thr with the Subject sub-brick.

3

thank you!