Hello experts, I did my skull stripping and white matter labelling using an lesion explorer and I want to replace the brainmask.mgz and wm.seg.mgz generated by freesurfer with the brainmask and wm.seg.mz from lesion explorer. Is there a freesurfer script that can do it? Thanks, Paul
Hi Paul
no, I don't think so. If you use our voxel-labeling conventions you should just be able to copy them in to the mri dir
cheers Bruce On Fri, 21 Oct 2016, miracle ozzoude wrote:
Hello experts, I did my skull stripping and white matter labelling using an lesion explorer and I want to replace the brainmask.mgz and wm.seg.mgz generated by freesurfer with the brainmask and wm.seg.mz from lesion explorer. Is there a freesurfer script that can do it? Thanks, Paul
Thanks Bruce. Where can I find them?
Sent from my BlackBerry 10 smartphone. Original Message From: Bruce Fischl Sent: Friday, October 21, 2016 1:19 PM To: Freesurfer support list Reply To: Freesurfer support list Subject: Re: [Freesurfer] skull stripping and white matter labelling
Hi Paul
no, I don't think so. If you use our voxel-labeling conventions you should just be able to copy them in to the mri dir
cheers Bruce On Fri, 21 Oct 2016, miracle ozzoude wrote:
Hello experts, I did my skull stripping and white matter labelling using an lesion explorer and I want to replace the brainmask.mgz and wm.seg.mgz generated by freesurfer with the brainmask and wm.seg.mz from lesion explorer. Is there a freesurfer script that can do it? Thanks, Paul
in FreeSurferColorLUT.txt (for lesion labels). For the wm, we keep the voxel intensities for voxels that are "on" and set everything else to 0. The brainmask.mgz is the same
On Fri, 21 Oct 2016, miracooloz@gmail.com wrote:
Thanks Bruce. Where can I find them?
Sent from my BlackBerry 10 smartphone. Original Message From: Bruce Fischl Sent: Friday, October 21, 2016 1:19 PM To: Freesurfer support list Reply To: Freesurfer support list Subject: Re: [Freesurfer] skull stripping and white matter labelling
Hi Paul
no, I don't think so. If you use our voxel-labeling conventions you should just be able to copy them in to the mri dir
cheers Bruce On Fri, 21 Oct 2016, miracle ozzoude wrote:
Hello experts, I did my skull stripping and white matter labelling using an lesion explorer and I want to replace the brainmask.mgz and wm.seg.mgz generated by freesurfer with the brainmask and wm.seg.mz from lesion explorer. Is there a freesurfer script that can do it? Thanks, Paul
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
miracle ozzoude -
miracooloz＠gmail.com