but who decided 0.7mm iso was the right setting for the scanner? Can you change that? what kind of scanner and coil is it?
On Tue, 15 Feb 2011, Evan Luther wrote: > Sorry about that! Hear they are. The reason why we want .7 mm resolution is > because that is the resolution of the volume anatomies we obtain from the > scanner. > > Thanks again! > > On Tue, Feb 15, 2011 at 4:39 PM, Bruce Fischl > <fis...@nmr.mgh.harvard.edu>wrote: > >> 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
