Re: [Freesurfer] ventricles labeled as white matter in hydrocephalus brain

2009-04-22 Thread Nick Schmansky
Dana, There is also a '-bigventricles' flag which you can pass to recon-all, which affects mri_ca_register and mri_ca_label. Not sure of its efficacy though. Nick On Thu, 2009-04-16 at 14:54 -0400, Bruce Fischl wrote: > Hi Dana, > > the really huge ventricle subjects do sometimes fail with th

Re: [Freesurfer] ventricles labeled as white matter in hydrocephalus brain

2009-04-16 Thread Bruce Fischl
Hi Dana, the really huge ventricle subjects do sometimes fail with the current version. We have some tools in development that work quite nicely for many different ventricle sizes (including huge), but they aren't close to being ready to be distributed. You should be able to edit the aseg.mgz

Re: [Freesurfer] ventricles labeled as white matter in hydrocephalus brain

2009-04-16 Thread Pedro Paulo de Magalhães Oliveira Junior
Dana, I have done some recon-all in NPH patients and didn't have any problems with NPH with large ventricles. Best Regards PPJ --- Pedro Paulo de M. Oliveira Junior Diretor de Operações Netfilter & SpeedComm Telecom --- Novo Netfilter 3.0 w

[Freesurfer] ventricles labeled as white matter in hydrocephalus brain

2009-04-16 Thread Dana W. Moore
I am trying to use FreeSurfer to measure ventricular volume among patients with normal pressure hydrocephalus. I have run the first subject, whose ventricles are huge. When looking at the subcortical segmentation (aseg.mgz) in tkmedit, I saw that large portions of the ventricles are labeled as