1. 40 subjects, 10 young, 10 middle ages, 10 elderly (healthy) and 10 with AD.
2. Many small things, the big one (described in our 2004 paper) is that we now use a nonlinear warp 3. Yes, hydrocephalus for example is hard, although we have made recent improvements in the warping that handle enlarged ventricles much better cheers Bruce On Thu, 31 Jan 2013, Zhennan Yan wrote: > Dear Bruce, > > Thank you very much for your reply. > I can convert my labels to Freesurfer labels and try the mri_ca_label now. > May I ask some more questions? > > 1) What subjects were used to train the atlas in the current version? Were > they healthy or diseased subjects? > 2) How the current implementation differs from the one in your Whole Brain > Segmentation (2002) paper? > 3) Is there any cases, e.g. on which clinical diseases, FreeSurfer will > produce less than ideal results? > > Thanks! > > Best, > Zhennan > > Zhennan Yan > Department of Computer Science > Rutgers University > > On 1/30/2013 3:10 PM, Bruce Fischl wrote: >> Hi Zhennan >> >> there is an option to mri_ca_label to read in a prior segmentation and >> iterate the MRF minimization, but unless your labels and conventions are >> identical to our's it's unlikely to work. You can use mri_ca_train to >> build the MRF and likelihoods and such if you want. >> >> cheers >> Bruce >> >> >> On Wed, 30 Jan 2013, Zhennan Yan wrote: >> >> > Dear freesurfer experts, >> > >> > I have questions about the MRF in Freesurfer: >> > (1) I have a T1 image and sub-cortical segmentation for it (nifti >> > format). But the segmentation is not perfect >> > and I would like to relabel it using the ICM algorithm as shown in fig.8 >> > in paper: Whole Brain Segmentation: >> > Automated Labeling of Neuroanatomical Structures in the Human Brain, >> > Fischl et al., (2002). >> > How can I do this using Freesurfer? >> > >> > (2) If I have several subjects with labels, how can I train the >> > anisotropic nonstationary MRF prior as equation >> > (9) in the same paper? Can I use that MRF prior elsewhere in my own >> > program? >> > >> > Many thanks! >> > >> > Best, >> > Zhennan >> > >> > >> >> >> 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
