Re: [Freesurfer] Spikes in the inflated surface

subj1dir.tar.gz in the outermost directory. On Tue, Feb 1, 2011 at 5:28 PM, Bruce Fischl wrote: > what did you call it? > > On Tue, 1 Feb 2011, Nikolas Borrel-Jensen wrote: > > Thanks for the fast reply. I have uploaded the entire subject d

Re: [Freesurfer] Spikes in the inflated surface

what did you call it? On Tue, 1 Feb 2011, Nikolas Borrel-Jensen wrote: > Thanks for the fast reply. I have uploaded the entire subject directory and > would appreciate if you could take a look. > > /Nikolas > > On Tue, Feb 1, 2011 at 3:17 PM, Bruce Fischl > wrote: > >> Hi Nikolas >> >> the spiked

Re: [Freesurfer] Spikes in the inflated surface

Thanks for the fast reply. I have uploaded the entire subject directory and would appreciate if you could take a look. /Nikolas On Tue, Feb 1, 2011 at 3:17 PM, Bruce Fischl wrote: > Hi Nikolas > > the spiked by themselves aren't a problem, it's only if the surface isn't > accurately following th

Re: [Freesurfer] Spikes in the inflated surface

You can also run the defect-seg program to help locate the places where the automatic topology fixer fixed defects. Run it with --help to get more info. doug Bruce Fischl wrote: > Hi Nikolas > > the spiked by themselves aren't a problem, it's only if the surface isn't > accurately following th

Re: [Freesurfer] Spikes in the inflated surface

Hi Nikolas the spiked by themselves aren't a problem, it's only if the surface isn't accurately following the true gray/white boundary that you need to intervene. It's a bit hard to tell in this case without being able to scroll back and forth, but I suspect the segmentation is a bit inaccurate

[Freesurfer] Spikes in the inflated surface

Hi everybody. I have done all the auto-recon steps on my data, and I have some questions about the quality of the resulting images. I am aware of the troubleshooting tutorials, but I don't think these are covering my questions. I have uploaded some images of the surfaces and segmentations of a su