Hi Bruce,

Okay. I will try it out 5.1 in the future and compare it to 4.5.

I also have a question about comparisons between version 4.5 and 5.0

In some cases, I saw that FS 4.5 does a slightly better job at skull stripping than FS 5.0.
Esentially, FS 5.0 seems to make errors in the back of the brain and cuts out some tissue.
(Please see attached images).

The images are the same slice from the same subject processed with FS 4.5 and 5.0 (This happens across 5-10 slices)
In 5.0, I used the following command: recon-all -s "subj--id" -i "nifti-file" -all -nuintensitycor-3T
(I have seen this issue in atleast 5 subjects in our data)

Since 5.0 uses the graph cuts, could the error be due the combination of (graph cuts + -nuintensitycor-3T) ?
Also, I guess I could run 5.0  and use only graph cuts or -nuintensitycor-3T to isolate the error ?

Thanks
Mehul



On Tue, Feb 15, 2011 at 12:05 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
Hi Mehul,

I think 5.1 will work better for large ventricles than 4.5, but I'll be interested to hear your experience.

cheers
Bruce

On Tue, 15 Feb 2011, Mehul Sampat wrote:

Hi Bruce,
We have two studies being conducted (one cross-sectional and one
longitudinal)
Some of the subjects in have a lot of atrophy and have large ventircles.

For the cross-sectional analysis stream are there many differences between
4.5 and the forthcoming 5.1 ? Or would it be fine to use 4.5 for
cross-sectional analysis ?

(I understand that for the longitudinal study, I should wait for 5.1 and
process all the timepoints with 5.1)


Thanks
Mehul



On Thu, Jan 20, 2011 at 10:36 AM, Bruce Fischl
<fischl@nmr.mgh.harvard.edu>wrote:

Hi Derin

we are tracking down some issues with it and hope to have it out within a
month

cheers
Bruce
On Thu, 20 Jan 2011, Derin Cobia wrote:

All,

Just curious about the current estimated timeline for version 5.1, trying
to schedule some projects around it.  Thanks!

-Derin



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