So you want to make a particular label bigger (more surface area) on cortex? doug
On 07/16/2012 02:51 PM, Christopher Bell wrote: > > I tried using mri_label2vol with --aparc+aseg instead of --aparc. This > works and provides cortical and subcortical with no overlap. It doesn't > allow me to do cortical dilation, but that is probably because it > wouldn't mesh > well with the subcortical ROIs. Thanks. > > Chris > > > On Mon, Jul 16, 2012 at 9:03 AM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > > Hi Chris, I don't think there is such a tool. One thing you can do > is to > use the aparc+aseg.mgz as the source instead of the lh and rh surfaces > separately. This might solve all of your problems. > doug > > > On 07/06/2012 12:02 PM, Christopher Bell wrote: > > > > Hello Freesurfers, > > > > > > I have developed a pipeline that uses mri_label2vol to take > freesurfer > > parcellations to > > native fmri space, and uses dilation (within mri_label2vol) to make > > the ROIs larger since our resolution is only > > 3.5x3.5x4 we would end up with only a few voxels for some ROIs > due to > > large voxel > > size and partial voluming wihout the dilation. However, since the lh > > and rh are done > > separately by mri_label2vol, I now have overlap on the midline and > > have to go through a bunch > > of masking steps to eliminate it. > > > > My question is; is there a tool that will take both lh/rh > > parcellations to a new coordinate > > system, do dilation, and most importantly control for lh/rh overlap? > > Or any other > > similar suggestions. Thanks! > > > > Basically I am looking to rework my pipeline, and it seems I > should be > > able > > to find a more parsimonious solution, than my "Rube Goldberg" > approach. > > > > Chris > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 <tel:617-724-2358> > Fax: 617-726-7422 <tel:617-726-7422> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > 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. > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
