AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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rolinskira
September 06, 2018 04:52PM
Hello!

I've just recently discovered what ICC is and 3dLME, so forgive my ignorance. I am trying to compute test-retest reliability for 3 runs of resting state. The file I input is a whole brain correlation map from a seed in the left inferior frontal gyrus. I am struggling to understand the output of the command. It seems that the only output is a 3D dataset and I'm not sure how to interpret the results in the GUI. Also, is there a way to add an option to quantify values in a text file or something? Thanks so much!! Here's my code:

3dLME -prefix test_ICC \
-jobs 12 \
-model "1" \
-ranEff 'Cond+Subj' \
-ICC \
-dataTable \
Subj Cond InputFile \
p1 EO1 p1_left_IFG_rest_run1_Tcorr+tlrc \
p1 EC2 p1_left_IFG_rest_run2_Tcorr+tlrc \
p1 EC3 p1_left_IFG_rest_run3_eyes_closed_Tcorr+tlrc \
p96 EO1 p96_left_IFG_rest_run1_Tcorr+tlrc \
p96 EC2 p96_left_IFG_rest_run2_Tcorr+tlrc \
p96 EC3 p96_left_IFG_rest_run3_eyes_closed_Tcorr+tlrc
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Subject Author Posted

Understanding 3dLME output for ICC

rolinskira September 06, 2018 04:52PM

Re: Understanding 3dLME output for ICC

gang September 07, 2018 09:54AM

Re: Understanding 3dLME output for ICC

rolinskira September 07, 2018 11:50AM

Re: Understanding 3dLME output for ICC

gang September 10, 2018 01:53PM

Re: Understanding 3dLME output for ICC

rolinskira September 18, 2018 04:16PM

Re: Understanding 3dLME output for ICC

gang September 19, 2018 03:35PM

Re: Understanding 3dLME output for ICC

rolinskira October 18, 2018 02:26PM