Thanks for replying Doug, Yes, I would like to use my own mask if the choroid plexus is included but *only* for Tau PET. There is high off-target binding of the new tau PET ligand AV1451 (formerly called T807) in choroid plexus. I wanted to avoid that high signal when estimating CSF.
I think choroid plexus being included for all the other types of PET I plan on using (FDG or amyloid PET) is great -- because it bridges the ventricles at the septum pellucidum (intended or not) -- and makes the erosion of 3mm much less 'harsh' because it's eroding from a connected mass of 1 segmentation instead of two independent segmentations (left and right ventricles). if choroid plexus is not included -- then no worries, I'll continue using it for AV1451 Tau PET just like for amyloid and FDG PET as planned. If it is -- is there a way to expose the CSF estimation in the script so that I could input my own estimation (just the ventricles)? Thanks! Adam On Thu, Oct 20, 2016 at 3:24 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> wrote: > What do you mean? You have your own CSF segmentation and you want to use > that instead of the one created by gtmseg? > > > > On 10/20/2016 11:32 AM, Adam Martersteck wrote: > > Hi FreeSurfer team, > > > > Hopefully Doug or someone familiar with the new PET PVC implementation > > can answer a few things I can't seem to find on > > http://surfer.nmr.mgh.harvard.edu/fswiki/PetSurfer or either of Doug's > > PVC publications (2013 or 2016). > > > > 1) Is the choroid plexus included in the binarized then 3mm eroded > > segmentation to find the mean ventricular CSF signal? > > > > 2) Is there a way to input my own estimation of ventricular CSF signal > > to mri_gtmpvc? > > > > Thanks! > > Adam > > > > > > _______________________________________________ > > Freesurfer mailing list > > 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 > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > 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. > >
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