External Email - Use Caution

Hi,

Thanks for the quick reply. What do you mean about uploading the entire subject? All the output files of the recon -all?

Best, Mara

Bruce Fischl fischl@nmr.mgh.harvard.edu escreveu no dia terça, 19/02/2019 à(s) 23:10:

wow, that looks pretty bad. Can you send us the recon-all.log (or upload the entire subject and we will investigate)? On Tue, 19 Feb 2019, mara alves wrote:

...

    External Email - Use Caution

Hi there,

I ran the recon -all command in two samples, one of young participants

and another of older

...

subjects.

The segmentation worked well for young participants, however it seems

that for older participants

...

the white.pial segmentation it is being done incorrectly. I believe it

is segmenting the gray matter

...

instead (please see the pics attached).

Best, Mara

---

Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

hmmm, I don't see anything glairing in the log. I guess upload the subject and we'll take a look Bruce

On Wed, 20 Feb 2019, mara alves wrote:

External Email - Use Caution

Here is the recon-all.log for one for old subjects.Thanks, Mara

mara alves mara.f.alves@gmail.com escreveu no dia quarta, 20/02/2019 à(s) 09:57: Hi, Thanks for the quick reply. What do you mean about uploading the entire subject? All the output files of the recon -all?

Best, Mara

Bruce Fischl fischl@nmr.mgh.harvard.edu escreveu no dia terça, 19/02/2019 à(s) 23:10: wow, that looks pretty bad. Can you send us the recon-all.log (or upload the entire subject and we will investigate)? On Tue, 19 Feb 2019, mara alves wrote:

  >
  >         External Email - Use Caution        
  >
  > Hi there,
  >
  > I ran the recon -all command in two samples, one of young participants and
  another of older
  > subjects.
  >
  > The segmentation worked well for young participants, however it seems that for
  older participants
  > the white.pial segmentation it is being done incorrectly. I believe it is
  segmenting the gray matter
  > instead (please see the pics attached).
  >
  > Best,
  > Mara
  >
  >_______________________________________________
  Freesurfer mailing list
  Freesurfer@nmr.mgh.harvard.edu
  https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

External Email - Use Caution

Hi there,

Just want to check if you get the recon-all files that I sent for an entire subject?!

I am also wondering if the problem with the segmentation can be related to the small size of aged Portuguese brains considering the expected size based for instance on the MNI space?!

Because pial segmentation is including intensities under 110 and the aseg maps are also badly estimated

Em quarta-feira, 20 de fevereiro de 2019, Bruce Fischl < fischl@nmr.mgh.harvard.edu> escreveu:

hmmm, I don't see anything glairing in the log. I guess upload the subject and we'll take a look Bruce

On Wed, 20 Feb 2019, mara alves wrote:

...

    External Email - Use Caution

Here is the recon-all.log for one for old subjects.Thanks, Mara

mara alves mara.f.alves@gmail.com escreveu no dia quarta, 20/02/2019 à(s) 09:57: Hi, Thanks for the quick reply. What do you mean about uploading the entire subject? All the output files of the recon -all?

Best, Mara

Bruce Fischl fischl@nmr.mgh.harvard.edu escreveu no dia terça, 19/02/2019 à(s) 23:10: wow, that looks pretty bad. Can you send us the recon-all.log (or upload the entire subject and we will investigate)? On Tue, 19 Feb 2019, mara alves wrote:

  >
  >         External Email - Use Caution
  >
  > Hi there,
  >
  > I ran the recon -all command in two samples, one of young

participants and another of older > subjects. > > The segmentation worked well for young participants, however it seems that for older participants > the white.pial segmentation it is being done incorrectly. I believe it is segmenting the gray matter > instead (please see the pics attached). > > Best, > Mara > >_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer