[Freesurfer] problem with generating cesvar.nii

2011-10-19 Thread SHAHIN NASR
Hi, I have generated two different functional connectivity maps for two different ROI-based seeds. These maps are based on group-average of the same subjects (generated by using separate isxconcat-sess commands ), and now I want to see the difference map. To do so, I used mris_calc as below.

Re: [Freesurfer] problem with generating cesvar.nii

2011-10-19 Thread Douglas N Greve
Hi Shahin, it is not as simple as doing a subtraction of the cesvar files. What you are trying to get is the expected variance of your difference between the ces files (as a variance, it must be positive). To get this you need cesvardiff = (cesvar1+cesvar2)/(2^2) The 2^2 is the number of

Re: [Freesurfer] problem with generating cesvar.nii

2011-10-19 Thread SHAHIN NASR
Thanks Doug. Just one related question. Should I also generate a new ffxdof.dat file for this map? I assumed that ffxdof depends on the number of subjects (session) and since number of subjects (sessions) is the same between the two groups then I can use those values, generated by

Re: [Freesurfer] problem with generating cesvar.nii

2011-10-19 Thread Douglas N Greve
It should be roughly the sum of the dofs of the individual subjects. Why are you using a fixed-effects model? doug SHAHIN NASR wrote: Thanks Doug. Just one related question. Should I also generate a new ffxdof.dat file for this map? I assumed that ffxdof depends on the number of

Re: [Freesurfer] problem with generating cesvar.nii

2011-10-19 Thread SHAHIN NASR
Do you suggest using random-effect model? Is there any problem with using a fix-effect model (other than the fact that by using this model we can not predict response of subjects outside our population)? On Wed, Oct 19, 2011 at 3:07 PM, Douglas N Greve gr...@nmr.mgh.harvard.eduwrote: It should

Re: [Freesurfer] problem with generating cesvar.nii

2011-10-19 Thread Douglas N Greve
If you don't care about extending your results beyond your sample, then an FFx is fine. doug SHAHIN NASR wrote: Do you suggest using random-effect model? Is there any problem with using a fix-effect model (other than the fact that by using this model we can not predict response of subjects