Re: [Freesurfer] making ROI after bbregister

2015-08-26 Thread Bruce Fischl
it is the registration between and the surfaces/conformed volumes. If you are just using the volumes used for recon then it can be identity.nofile cheers Bruce On Wed, 26 Aug 2015, Yun Wang wrote: Usage: mri_compute_layer_fractions [options] What is ? ?  On Aug 26, 2015, at 10:3

Re: [Freesurfer] making ROI after bbregister

2015-08-26 Thread Yun Wang
Usage: mri_compute_layer_fractions [options] What is ? ? > On Aug 26, 2015, at 10:37, Bruce Fischl wrote: > > we have toold for doing this but they aren't documented (mris_expand, > mri_compute_layer_fractions, mris_compute_layer_intensities). This is what > Rebecca Shafee used in her r

Re: [Freesurfer] making ROI after bbregister

2015-08-26 Thread Bruce Fischl
we have toold for doing this but they aren't documented (mris_expand, mri_compute_layer_fractions, mris_compute_layer_intensities). This is what Rebecca Shafee used in her recent two-compartment paper http://www.ncbi.nlm.nih.gov/pubmed/25449739 cheers Bruce On Wed, 26 Aug 2015, Douglas Greve

Re: [Freesurfer] making ROI after bbregister

2015-08-26 Thread Douglas Greve
I'm not sure what you mean. bbregister does not divide gm into layers. Can you elaborate on what you have done and trying to do? On 8/26/15 11:02 AM, Yun Wang wrote: > Dear all experts, > > > I am currently dividing the gray matter into 6 different layers using > bbregister, however, does anyone

[Freesurfer] making ROI after bbregister

2015-08-26 Thread Yun Wang
Dear all experts, I am currently dividing the gray matter into 6 different layers using bbregister, however, does anyone know how to make the space between layers into ROIs? Thanks! Appreciating your idea. Yun ___ Freesurfer mailing list Freesur