Re: [Freesurfer] mri_average vs mri_concat

what are the source files ("all files"). What data type, value range, where did they come from?

On 10/05/2016 04:48 PM, Trisanna Sprung-Much wrote:

Hi Doug

So, of course now it works without --keep-filetype... :p it looks pretty much the same was when I use --keep-filetype.

However, the values of Min and Max are still odd (out of 256) - see snapshot

Trisanna

-- Ph.D. Candidate McGill University Integrated Program in Neuroscience Psychology

On Wed, Oct 5, 2016 at 4:23 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

Depending upon the type of the data, the --keep-datatype may mess
things
up quite a bit. What happens if you don't include that? It will not
create an annotation. maybe you mean some other file type?


On 10/05/2016 02:36 PM, Trisanna Sprung-Much wrote:
>
> Hi Doug
>
> I spoke with you at the Freesurfer tutorial last week about using
> mri_average to average my sulcal labels and get a probability map on
> fsaverage. You had suggested using "mri_concat" instead, which is a
> newer command. So, I performed the following command:
>
> *mri_concat all files --o output.mgz --mean --keep-datatype*
>
> I had to put --keep-datatype or else it tried to create an annot
file.
>
> This worked just fine.
>
> My question then is concerning *the min and max values *when this
> average is overlayed in Freeview. See the snapshot attached. The
> values seem to be based on 256 instead of percentage and this is
what
> happens when I used "mri_average" without specifying the "-p". Is
> there a way to illustrate the values in percentage in a similar way
> with mri_concat?
>
> Many thanks!
>
> Trisanna
>
>
> --
> Ph.D. Candidate
> McGill University
> Integrated Program in Neuroscience
> Psychology
>
>
>
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