We use a similar pipeline but with different atlases and processing steps for the newborns. Lilla
On Wed, 5 Jul 2017, Das S. wrote:
Thanks for the reply. If you let me know, among the below list of steps of current recon-all, currently which is not suitable to perform on neonates MRI image, will really appreciate.
Autorecon Processing Stages: Motion Correction and Conform NU (Non-Uniform intensity normalization) Talairach transform computation Intensity Normalization 1 Skull Strip EM Register (linear volumetric registration) CA Intensity Normalization CA Non-linear Volumetric Registration Remove Neck LTA with Skull CA Label (Volumetric Labeling, ie Aseg) and Statistics Intensity Normalization 2 (start here for control points) White matter segmentation Edit WM With ASeg Fill (start here for wm edits) Tessellation (begins per-hemisphere operations) Smooth1 Inflate1 QSphere Automatic Topology Fixer Final Surfs (start here for brain edits for pial surf) Smooth2 Inflate2 Spherical Mapping Spherical Registration Spherical Registration, Contralateral hemisphere Map average curvature to subject Cortical Parcellation - Desikan_Killiany and Christophe (Labeling) Cortical Parcellation Statistics Cortical Ribbon Mask Cortical Parcellation mapping to Aseg
BW S Das ________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Lilla Zollei [lzollei@nmr.mgh.harvard.edu] Sent: 04 July 2017 22:04 To: Freesurfer support list Subject: Re: [Freesurfer] recon-all on newborn
Hi S Das,
We are trying to release the infant pipeline by the end of the summer.
Lilla
On Tue, 4 Jul 2017, Das S. wrote:
Dear Freesurfer expert, I want to perform recon-all pipeline on neonates data.Can I do so? I was going through some mail archives and there it is said that on T1 image of neonates data we can't perform recon-all. But again there is another paper where it says Freesurfer can perform segmentation of neonates image. Any input will be appreciated. Thanks S Das
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer