[VoxBo] fdr in vbstatmap and f-tests in rfx analysis

[David January]

Hi Dan,

The blank subjects in the .tes file have NaN as their values in vbview.

The individual subject glms all have the same covariates of interest
in the same order.

I normalized the data during initial preparation, so I'm not running
the spm2norm version of the second tier analysis.

How do I make sure the functional.cub and the tes file have the same
origin?  And if they didn't, wouldn't the t-scale version of the
second tier analysis also fail?

On Nov 28, 2007 1:45 PM, Daniel Y Kimberg <kimberg at mail.med.upenn.edu> wrote:
> David January wrote:
> > The red values are virtually everywhere on the map (i've attached a
> > .jpg for illustration).  When I look at each subject's statmap in
> > vbview, 8 of them are black, but the remaining 11 are sensible (if
> > faint).  I bet the black ones are causing the error, however, none
> > of my subjects when viewed individually has an empty brain for the
> > contrast.  Any ideas what could be causing this?
>
> If you hover the mouse over the image, vbview will tell you what the
> values are, which could be helpful.  Here are a few things to check.
> First, if you're using the same contrast for each subject, make sure
> the G matrices have the same covariates of interest in the same order.
> You can do this by looking at the header of the G matrix, or by
> running glminfo on the directory.  Second, if you're using the
> spm2norm version of the rfx script, make sure all your subjects have
> spm2 normalization parameters in the anatomy directory, and decent
> looking nFunctional.cub files.  Third, make sure your tes files have
> the same origin as the Functional.cub in your anatomy directory,
> otherwise the normalization won't work.  It will also help to take a
> look at the intermediate files that the rfx script uses: the map,
> nmap, mask, and nmask files for the bad subjects.  This will tell you
> a lot about where things went wrong.
>
> dan
>



-- 
David January
Department of Psychology
University of Pennsylvania