On 8/11/2021 1:17 PM, Erik O'Hanlon wrote:

External Email - Use Caution

External Email - Use Caution

Dear FS experts,

I have run the longitudinal pipeline on a dataset with three timepoints. I am particularly interested in the longitudinal hippocampal and amygdala data and want to run LME on these.

I've made the qdec table with the id age, sex and time between scans etc. and have exported all the hippocamapal and amygdala volumes to csv files to merge with demographic data.

Should I smooth the hippocampal and amygdala measures before running the LME?

I'm not sure what you mean by smoothing here. The hippo and amyg measures are just single numbers, so nothing to smooth.

Do I run Qcache and if so do I use
recon-all -long SubID_tp1 subIDbase -qcache

No, again, these are single numbers and qcache creates maps

In the LME wiki instructions it gives an example for the mass-univariate approach on thickness. Is the study_average referring to the fsaverage ?

Yes. You can create your own, but using fsaverage is fine.

Should I be using the ICV from the cross-sectional runs or the ICV measures in the "long" folders which refer?

Use it from the long

Thanks and any help is very much appreciated.

Erik

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