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

History of AFNI updates  

|
March 07, 2023 11:48PM
Thanks for your reply.

> So, COV varies across the combinations among the three factors W1-3 for each subject?

Yes, COV varies for the two levels of W1 (visit 1 and visit 2). This means that COV is the same for the levels of W2 and W3 per level of W1 (visit).

> corSymm() is used to specify the variance-covariance structure in the residuals. I would not worry too much about the residuals. Instead, it might make sense to try
-ranEff “~1+COV”

I'm afraid that I'm still a bit puzzled. Why should we not worry about the var-cov structure of the residuals? And what are we actually specifying if we use ranEff “~1+COV”?
We would like to adequately specify our repeated measures across the within subject variables W1 - W3. We see a big difference between the default settings, and specifying a structure under corStr, and also noticed that no matter what we specify under corStr, it results in the use of AR1 in the code, but we might be wrong. We think an unstructured matrix suits our data the best, but we are not sure how to set this up in 3dLME (but we know how to do it using R's lme). Any additional help/info would be highly appreciated.

Thanks,

Best
Hans
Subject Author Posted

var-cov structure 3dLME

hansvanderhorn March 03, 2023 11:32AM

Re: var-cov structure 3dLME

gang March 04, 2023 09:45AM

Re: var-cov structure 3dLME

hansvanderhorn March 06, 2023 01:06PM

Re: var-cov structure 3dLME

hansvanderhorn March 07, 2023 03:52PM

Re: var-cov structure 3dLME

gang March 07, 2023 10:52PM

Re: var-cov structure 3dLME

hansvanderhorn March 07, 2023 11:48PM

Re: var-cov structure 3dLME

hansvanderhorn March 08, 2023 10:45AM

Re: var-cov structure 3dLME

gang March 08, 2023 02:51PM