Re: [Freesurfer] Still confused by group analysis..

On 6/12/13 7:03 AM, Tudor Popescu wrote: Sorry Doug, wasn't sure whether you'd seen my last reply to this.. On 6 Jun 2013 21:37, "Tudor Popescu" > wrote: Thanks Doug, So if I want to use the study-specific "average" subject surface with

Re: [Freesurfer] Still confused by group analysis..

Thanks Doug, > So if I want to use the study-specific "average" subject surface with >> mri_surf2surf, rather than the generic "fsaverage" one, how can this be >> done given that the required ls.white file only exists in the latter but >> not in the former? Can I just rename (or duplicate) ls.wh

Re: [Freesurfer] Still confused by group analysis..

On 06/05/2013 11:49 AM, Tudor Popescu wrote: > > C) When running mri_surf2surf, I get an error saying > that file > /surf/lh.white cannot be opened. The 'average' folder > produced > after I ran make_average_subject does not contain a

Re: [Freesurfer] Still confused by group analysis..

> > C) When running mri_surf2surf, I get an error saying that file >> /surf/lh.white cannot be opened. The 'average' folder produced >> after I ran make_average_subject does not contain a >> /surf/lh.white file, only a /surf/lh.white_avg file! I didn’t >> fin

Re: [Freesurfer] Still confused by group analysis..

On 05/22/2013 01:43 PM, Tudor Popescu wrote: > > > 1) In a design with group and gender as discrete > factors and age > > as a continuous factor, why is it that QDEC only > displays the > > contrast "Does the avg thickness, accounting

Re: [Freesurfer] Still confused by group analysis..

Sorry, that read gender and age. The contrast takes age into account, it is just a problem with the code that generates the sentence. Have not had a chance to answer the others, I thought I'd try to get one wrapped up. It looks like you added a few more questions at the end. Unless they are clo

Re: [Freesurfer] Still confused by group analysis..

> > 1) In a design with group and gender as discrete factors and age >> > as a continuous factor, why is it that QDEC only displays the >> > contrast "Does the avg thickness, accounting for gender, differ >> > between group1 and group2?" and not also "..acounting for

Re: [Freesurfer] Still confused by group analysis..

On 05/14/2013 02:22 PM, Tudor Popescu wrote: > > > 1) In a design with group and gender as discrete factors and age > > as a continuous factor, why is it that QDEC only displays the > > contrast "Does the avg thickness, accounting for gender, differ > > between grou

Re: [Freesurfer] Still confused by group analysis..

> > > 1) In a design with group and gender as discrete factors and age > > as a continuous factor, why is it that QDEC only displays the > > contrast "Does the avg thickness, accounting for gender, differ > > between group1 and group2?" and not also "..acounting for gender > > a

Re: [Freesurfer] Still confused by group analysis..

Hi Arman, I have not followed the FSL thread, but you would only do this if you have a column of ones in your design matrix. Itdoes not imply that gender is being treated as a continous variable. A continuous variable for gender means that male=1 and female=2. This implies that you expect femal

Re: [Freesurfer] Still confused by group analysis..

Dear Doug and others, I'm sorry to hijack this thread. I noticed in FSL list that it has been recommended to demean gender (and probably other categorical variables) in GLM. As far as I understand, this implies treating a categorical variable as a continuous one. However, I can also see that you r

Re: [Freesurfer] Still confused by group analysis..

On 05/14/2013 10:05 AM, Tudor Popescu wrote: > Not sure whether anyone'd seen my last email (below). Again apologies > for the multitude of questions, I hope this is the last batch for this > analysis.. > > On 12 May 2013 16:45, Tudor Popescu > wrote: > > Dear Frees

Re: [Freesurfer] Still confused by group analysis..

Not sure whether anyone'd seen my last email (below). Again apologies for the multitude of questions, I hope this is the last batch for this analysis.. On 12 May 2013 16:45, Tudor Popescu wrote: > Dear Freesurfer experts, > > I very much appreciate your help with an additional set of questions.

[Freesurfer] Still confused by group analysis..

Dear Freesurfer experts, I very much appreciate your help with an additional set of questions. I feel I'm really close to getting this finished :) 1) In a design with group and gender as discrete factors and age as a continuous factor, why is it that QDEC only displays the contrast "Does the avg