Hi.
I have few questions regarding the recently published OASIS data analyzed using Freesurfer:
1. How did you produce $SUBJECT_ID/mri/wmparc.mgz. I am running recon-all -all on my subjects, but I don't get this file. 2. How did you produce segmentation of the corpus callosum. I am running recon-all -all on my subjects, but I don't get this file. 3. Why do the structure volumes differ between $SUBJECT_ID/stats/wmparc.stat and $SUBJECT_ID/stats/aseg.stat
Thanks,
Martin
Hi Martin,
these are features we'll include in our next release, hopefully sometime this summer.
I'll leave 3 for Doug.
cheers, Bruce On Wed, 11 Jul 2007, Martin Kavec wrote:
Hi.
I have few questions regarding the recently published OASIS data analyzed using Freesurfer:
- How did you produce $SUBJECT_ID/mri/wmparc.mgz. I am running recon-all -all
on my subjects, but I don't get this file. 2. How did you produce segmentation of the corpus callosum. I am running recon-all -all on my subjects, but I don't get this file. 3. Why do the structure volumes differ between $SUBJECT_ID/stats/wmparc.stat and $SUBJECT_ID/stats/aseg.stat
Thanks,
Martin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks for answer Bruce,
does this mean that I will have to reanalyze all my subjects from the beginning?
Martin
On Wednesday 11 July 2007 14:53:59 you wrote:
Hi Martin,
these are features we'll include in our next release, hopefully sometime this summer.
I'll leave 3 for Doug.
cheers, Bruce
On Wed, 11 Jul 2007, Martin Kavec wrote:
Hi.
I have few questions regarding the recently published OASIS data analyzed using Freesurfer:
- How did you produce $SUBJECT_ID/mri/wmparc.mgz. I am running recon-all
-all on my subjects, but I don't get this file. 2. How did you produce segmentation of the corpus callosum. I am running recon-all -all on my subjects, but I don't get this file. 3. Why do the structure volumes differ between $SUBJECT_ID/stats/wmparc.stat and $SUBJECT_ID/stats/aseg.stat
Thanks,
Martin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
no, you should be able to just run these steps to add the wmparc and the cc - as soon as we fix them!
On Thu, 12 Jul 2007, Martin Kavec wrote:
Thanks for answer Bruce,
does this mean that I will have to reanalyze all my subjects from the beginning?
Martin
On Wednesday 11 July 2007 14:53:59 you wrote:
Hi Martin,
these are features we'll include in our next release, hopefully sometime this summer.
I'll leave 3 for Doug.
cheers, Bruce
On Wed, 11 Jul 2007, Martin Kavec wrote:
Hi.
I have few questions regarding the recently published OASIS data analyzed using Freesurfer:
- How did you produce $SUBJECT_ID/mri/wmparc.mgz. I am running recon-all
-all on my subjects, but I don't get this file. 2. How did you produce segmentation of the corpus callosum. I am running recon-all -all on my subjects, but I don't get this file. 3. Why do the structure volumes differ between $SUBJECT_ID/stats/wmparc.stat and $SUBJECT_ID/stats/aseg.stat
Thanks,
Martin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
#3 is an error in the osasis data set. It has been taken down until we resolve it.
doug
Martin Kavec wrote:
Hi.
I have few questions regarding the recently published OASIS data analyzed using Freesurfer:
- How did you produce $SUBJECT_ID/mri/wmparc.mgz. I am running recon-all -all
on my subjects, but I don't get this file. 2. How did you produce segmentation of the corpus callosum. I am running recon-all -all on my subjects, but I don't get this file. 3. Why do the structure volumes differ between $SUBJECT_ID/stats/wmparc.stat and $SUBJECT_ID/stats/aseg.stat
Thanks,
Martin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks for the answer Doug,
can still trust the aseg.stat values or I better wait? Will you release some diff version of the files or we will have to start downloading 150GB from the beginning?
Martin
On Wednesday 11 July 2007 20:09:59 Doug Greve wrote:
#3 is an error in the osasis data set. It has been taken down until we resolve it.
doug
Martin Kavec wrote:
Hi.
I have few questions regarding the recently published OASIS data analyzed using Freesurfer:
- How did you produce $SUBJECT_ID/mri/wmparc.mgz. I am running recon-all
-all on my subjects, but I don't get this file. 2. How did you produce segmentation of the corpus callosum. I am running recon-all -all on my subjects, but I don't get this file. 3. Why do the structure volumes differ between $SUBJECT_ID/stats/wmparc.stat and $SUBJECT_ID/stats/aseg.stat
Thanks,
Martin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
No, the aseg.stats should be fine. I don't know how they are going to release the new set of files.
doug
Martin Kavec wrote:
Thanks for the answer Doug,
can still trust the aseg.stat values or I better wait? Will you release some diff version of the files or we will have to start downloading 150GB from the beginning?
Martin
On Wednesday 11 July 2007 20:09:59 Doug Greve wrote:
#3 is an error in the osasis data set. It has been taken down until we resolve it.
doug
Martin Kavec wrote:
Hi.
I have few questions regarding the recently published OASIS data analyzed using Freesurfer:
- How did you produce $SUBJECT_ID/mri/wmparc.mgz. I am running recon-all
-all on my subjects, but I don't get this file. 2. How did you produce segmentation of the corpus callosum. I am running recon-all -all on my subjects, but I don't get this file. 3. Why do the structure volumes differ between $SUBJECT_ID/stats/wmparc.stat and $SUBJECT_ID/stats/aseg.stat
Thanks,
Martin _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Doug Greve -
Martin Kavec