Hi Bruce, As always thank you for your prompt reply.
For the morphological close operation, would you suggest using mris_fill on the surface ROI I created and then running mri_vol2surf again on the volume output by mris_fill? Best, Derek ________________________________________ Derek Sayre Andrews, MSc PhD Candidate The Sackler Institute for Translational Neurodevelopment Department of Forensic and Neurodevelopmental Sciences Institute of Psychiatry, Psychology & Neuroscience, King's College London Telephone: +44 (0)20 7848 5701 Email: derek.andr...@kcl.ac.uk On 28/10/2016 14:54, "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> wrote: >p.s. you could remove many/most of these holes using a morphological >close operation >On Fri, 28 Oct 2016, Andrews, Derek wrote: > >> Hello Freesurfer Developers and Community, >> >> I am looking to map a ROI.nii based on the MNI152 template to the >>fsaverage >> pial surface. >> >> I have used the following commands >> >> Bbregister ‹s fsaverage ‹mov MNI152.nii ‹reg register.dat ‹init-fsl ‹12 >>‹t1 >> >> Then >> >> mri_vol2surf ‹src ROI.nii ‹out ROI.mgh ‹srcreg register.dat ‹hemi lh >> >> The ROI appears to be in the right place however is very blotchy. Have I >> missed a step? Or is this correct? >> >> See bellow a picture of the ROI highlighted in FSL and in tksurfer after >> mapped using the above. >> >> Thank you for your support, >> >> Best, Derek >> >> [IMAGE] >> >> >> >> >>_________________________________________________________________________ >>___ >> >> Derek Sayre Andrews, MSc >> PhD Candidate >> >> The Sackler Institute for Translational Neurodevelopment >> >> Department of Forensic and Neurodevelopmental Sciences >> >> Institute of Psychiatry, Psychology & Neuroscience, King's College >>London >> >> Telephone: +44 (0)20 7848 5701 >> Email: derek.andr...@kcl.ac.uk >> >> >> >>_______________________________________________ >Freesurfer mailing list >Freesurfer@nmr.mgh.harvard.edu >https://emea01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmail.nm >r.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer&data=01%7C01%7Cderek.a >ndrews%40kcl.ac.uk%7C65ef7af2f2c1455a461a08d3ff3a0395%7C8370cf1416f34c16b8 >3c724071654356%7C0&sdata=liaieNpnjB7M4w9favIeZ9B0ZrooUbfDThLvJxmbcuo%3D&re >served=0 > > >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 >https://emea01.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.part >ners.org%2Fcomplianceline&data=01%7C01%7Cderek.andrews%40kcl.ac.uk%7C65ef7 >af2f2c1455a461a08d3ff3a0395%7C8370cf1416f34c16b83c724071654356%7C0&sdata=% >2F%2Fl3dvHGeXDJCkpHGWdvv9sI59QW76kFK%2FK1HdUQZnE%3D&reserved=0 . 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 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.
