Re: [Freesurfer] Problems with GM segmentation -- How to solve it
External Email - Use Caution Hi Bruce, Already sent: ftp> put 013.tar.gz local: 013.tar.gz remote: 013.tar.gz 200 PORT command successful. Consider using PASV. 150 Ok to send data. 226 Transfer complete. 223104380 bytes sent in 808.49 secs (269.4852 kB/s) ftp> On Wed, Dec 12, 2018 at 1:39 PM Rosalia Dacosta Aguayo wrote: > Hi Bruce, > > Thank you for your reply. > I am sending now a file called 013.tar.gz via ftp. And this is not the > worst...there are other with more regions that have not been considered in > the segmentation process. I would like to know how could I cope with GM > editions, as I am doing with control points with WM. > > Yours sincerely, > Rosalia > > On Tue, Dec 11, 2018 at 5:17 PM Bruce Fischl > wrote: > >> Hi Rosalia >> >> if you upload an example with voxel coordinates of where you see problems >> we will take a look >> >> cheers >> Bruce >> On Tue, 11 Dec 2018, Rosalia Dacosta Aguayo wrote: >> >> > >> > External Email - Use Caution >> > >> > Dear Free Surfer team and Bruce, >> > >> > I have been doing well editing the skull stripping, and using control >> points >> > to improve white matter segmentation. Furthermore, the few participants >> I >> > had problems with due to large ventricles were solved using the flag you >> > recommended me to use. I am very grateful for all your help. >> > >> > However, I am facing another problem I thought I could solve using >> control >> > points as well but this is worsening things instead of improving them. I >> > refer to grey matter segmentation. I have found that several >> participants, >> > more than I would like, are having problems with grey matter >> segmentation in >> > the ventral temporal lobes and in the occipital lobe as well. >> > >> > I wonder if you could kindly help me with this, telling me how I could >> solve >> > this problem so GM and WM segmentation are fine. >> > >> > Yours sincerely, >> > Rosalia >> > >> > >> > >> >___ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] Problems with GM segmentation -- How to solve it
External Email - Use Caution Hi Bruce, Thank you for your reply. I am sending now a file called 013.tar.gz via ftp. And this is not the worst...there are other with more regions that have not been considered in the segmentation process. I would like to know how could I cope with GM editions, as I am doing with control points with WM. Yours sincerely, Rosalia On Tue, Dec 11, 2018 at 5:17 PM Bruce Fischl wrote: > Hi Rosalia > > if you upload an example with voxel coordinates of where you see problems > we will take a look > > cheers > Bruce > On Tue, 11 Dec 2018, Rosalia Dacosta Aguayo wrote: > > > > > External Email - Use Caution > > > > Dear Free Surfer team and Bruce, > > > > I have been doing well editing the skull stripping, and using control > points > > to improve white matter segmentation. Furthermore, the few participants I > > had problems with due to large ventricles were solved using the flag you > > recommended me to use. I am very grateful for all your help. > > > > However, I am facing another problem I thought I could solve using > control > > points as well but this is worsening things instead of improving them. I > > refer to grey matter segmentation. I have found that several > participants, > > more than I would like, are having problems with grey matter > segmentation in > > the ventral temporal lobes and in the occipital lobe as well. > > > > I wonder if you could kindly help me with this, telling me how I could > solve > > this problem so GM and WM segmentation are fine. > > > > Yours sincerely, > > Rosalia > > > > > > > >___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] Problems with GM segmentation -- How to solve it
Hi Rosalia if you upload an example with voxel coordinates of where you see problems we will take a look cheers Bruce On Tue, 11 Dec 2018, Rosalia Dacosta Aguayo wrote: External Email - Use Caution Dear Free Surfer team and Bruce, I have been doing well editing the skull stripping, and using control points to improve white matter segmentation. Furthermore, the few participants I had problems with due to large ventricles were solved using the flag you recommended me to use. I am very grateful for all your help. However, I am facing another problem I thought I could solve using control points as well but this is worsening things instead of improving them. I refer to grey matter segmentation. I have found that several participants, more than I would like, are having problems with grey matter segmentation in the ventral temporal lobes and in the occipital lobe as well. I wonder if you could kindly help me with this, telling me how I could solve this problem so GM and WM segmentation are fine. Yours sincerely, Rosalia ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
[Freesurfer] Problems with GM segmentation -- How to solve it
External Email - Use Caution Dear Free Surfer team and Bruce, I have been doing well editing the skull stripping, and using control points to improve white matter segmentation. Furthermore, the few participants I had problems with due to large ventricles were solved using the flag you recommended me to use. I am very grateful for all your help. However, I am facing another problem I thought I could solve using control points as well but this is worsening things instead of improving them. I refer to grey matter segmentation. I have found that several participants, more than I would like, are having problems with grey matter segmentation in the ventral temporal lobes and in the occipital lobe as well. I wonder if you could kindly help me with this, telling me how I could solve this problem so GM and WM segmentation are fine. Yours sincerely, Rosalia ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
