Hmm, ok. Are there no functions for doing a dilation/erosion on a surface label?
On Mon, Jul 16, 2012 at 1:14 PM, Douglas N Greve <[email protected]>wrote: > There is not an easy/good way to handle this situation. The way it works > is that it goes through each point in the source and finds the closest > vertex in the target. If the target is more densely sampled, then there > are some points in the target in the middle of the label that are not > the closest vertex to any label vertex in the source. It is hard to > figure out computationally whether an unlabeled point is in the middle > of the label or halfway around the brain. One thing that might work ok > is to save the output as a binary mask (--outmask), then smooth it a > little (mris_fwhm or mri_surf2surf), then re-binarize the mask > (mri_binarize), then convert it to a label (mri_cor2label --i > smoothed-and-binarized.mgh --id 1 --surf yoursubject lh white --o > lh.label.yoursubject). > > doug > > On 07/16/2012 03:30 PM, Michael Waskom wrote: > > Hi, just wanted to bump this up since it looks like Doug is back. > > > > On Tue, Jul 10, 2012 at 5:09 PM, Michael Waskom <[email protected] > > <mailto:[email protected]>> wrote: > > > > Hi, > > > > I'm using mri_label2label to reverse normalize labels from fsaverage > > space to the native surface. > > > > I'm ending up with some splotchy-looking labels, for lack of a better > > word. See what I mean here: > > http://web.mit.edu/mwaskom/www/splotchy.png > > > > I'm doing this normalization in a script with the following relevant > > line, which seems to be what happens inthe BAlabes step of recon-all > > > > mri_label2label --srclabel ../fsaverage/label/${hemi}.${roi}.label \ > > --srcsubject fsaverage --trgsubject ${subj} \ > > --trglabel label/$hemi.${roi}.label \ > > --regmethod surface --hemi $hemi > > > > Any idea how I can avoid this splotchiness or, failing that, do a > > closing on the label to clean up some of the noise? > > > > Cheers, > > Michael > > > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > [email protected] > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > [email protected] > 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 > [email protected] > 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. > >
_______________________________________________ Freesurfer mailing list [email protected] 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.
