Thanks a lot D martin for your quick answer.
Regarding my patients I have two groups but the subject in every group have differnt time points. i.e Group-patients 1: I have 100 patients some scanned three times and some four times the rest at least two times.
Group-Patients 2:  is consisted of 75 patients some also some scanned three times and some four times the rest at least two times.
 
Is LME -- mas usnivariate still workable with out a bias ?
 
 
Bests,
John 
 
Sent: Thursday, January 28, 2016 at 6:51 AM
From: "Martin Reuter" <mreuter@nmr.mgh.harvard.edu>
To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Longitudinal analysis--mass univariate
Hi John,
 
you should check if the number of time points per subject is relatively random across your two patient groups. You don’t want a bias, let’s say one patient group with 2 tp and the other with 3.
 
You can compare the atrophy across these two groups easily with LME. Or you can also test if the rate is different from zero in each individual group. 
 
You will never be able to compute atrophy rates for your control group (as you only have a single time point for them) so you cannot compare with them either.
 
Best, Martin
 
 
On Jan 28, 2016, at 12:23 PM, John Anderson <j.anderson@publicist.com> wrote:
 
Hi Dr Martin,
I have two groups of patients and one group of controls.
The patients scanned multiple times but the number of time points is different between the subjects.
The controls have only one time point.
 
I aim to :
1. I wanted to study the changes in cortical thickness over time in each group of patients.
2. I wanted to compare the change in cortical thickness between patients and controls over time.
 
I followed wiki and I choose LME to run the analysis.
My questions are:
1. Can I use mass univariate analysis to check the changes in cortical thickness over time in only one group of patients. The example In wiki was for four groups.
2. Can I do a comparison in cortical thickness over time between controls ( who have  only one time point ) and patients using mass univariate approach.
 
Bests,
John 
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