can you load them with the -segmentation flag in tkmedit so I can see them as a color overlay? And is there a reason you need 0.7mm data? That's why it is *so* noisy On Tue, 15 Feb 2011, Evan Luther wrote:
> Hey Bruce, > > Here are the aseg and aseg.auto_noCCseg files. Our data is at a .7 mm > resolution. > > Thanks! > > On Tue, Feb 15, 2011 at 4:15 PM, Bruce Fischl > <fis...@nmr.mgh.harvard.edu>wrote: > >> what does the aseg look like n that case? And what resolution is your data? >> >> On Tue, 15 Feb 2011, Evan Luther wrote: >> >> Hey Bruce, >>> >>> I also do not understand why I could not use the aseg but if I do not set >>> the noaseg flag I get a result like the picture I have attached where no >>> cut >>> is made. I have also attached a picture of the slanted cut. I am not sure >>> why this occurred and also why it only occurred on one subject's anatomy. >>> >>> Thanks for the help! >>> >>> -Evan >>> >>> On Tue, Feb 15, 2011 at 2:21 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu >>>> wrote: >>> >>> Hi Evan >>>> >>>> can you send some coronal images showing where it is slanted? I also >>>> don't >>>> understand why you can't use the aseg. What resolution are you acquiring >>>> the >>>> data at? >>>> cheers >>>> Bruce >>>> >>>> On Tue, 15 Feb 2011, Evan Luther wrote: >>>> >>>> Hello All! >>>> >>>>> >>>>> I am currently trying to create a high resolution anatomy by manually >>>>> changing some parameters throughout the recon-all process. I have >>>>> currently >>>>> hit a road block at the fill portion of the recon-all process. So far I >>>>> have >>>>> tried this high resolution reconstruction on two subject's anatomies. In >>>>> both subjects I used the flag -noaseg as well as seed points for the CC, >>>>> pons, left hemisphere, and right hemisphere at the fill step because >>>>> otherwise the fill command would use the aseg file for seed points and >>>>> subsequently the hemispheres would not get separated at all. >>>>> >>>>> Now here is the kicker, in one subject's anatomy this worked fine. It >>>>> split >>>>> the hemispheres down the middle without a problem. However on the other >>>>> subject the cut between the hemispheres is slanted, assigning portions >>>>> of >>>>> the right hemisphere to the left. I do not know how to correct this >>>>> problem. >>>>> I have tried using different seed points and not inputting seed points >>>>> and >>>>> this has yielded the same results. Any suggestion? >>>>> >>>>> thank you, >>>>> >>>>> Evan Luther >>>>> >>>>> >>>>> >>>> The information in this e-mail is intended only for the person to whom it >>>> is >>>> addressed. If you believe this e-mail was sent to you in error and the >>>> e-mail >>>> contains patient information, please contact the Partners Compliance >>>> HelpLine at >>>> http://www.partners.org/complianceline . If the e-mail was sent to you >>>> in >>>> error >>>> but does not contain patient information, please contact the sender and >>>> properly >>>> dispose of the e-mail. >>>> >>>> >>>> >>> > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
