The easiest thing is to use mri_label2vol, something like mri_label2vol --label yourlabel.label --temp functemplate.nii --reg register.dat --proj frac 0 1 .1 --hemi lh --subject subject --o yourlabel.nii
doug Zhangyuanchao wrote: > Thanks for your response! > > In fact, the label that I want to convert to functional space was > obtained by between-group comparisons, so it does not belong to any > existing parcellation template. > > What should I do in this case? > > Thanks! > > Best, > > --- *11年12月13日,周二, Douglas N Greve > /<gr...@nmr.mgh.harvard.edu>/* 写道: > > > 发件人: Douglas N Greve <gr...@nmr.mgh.harvard.edu> > 主题: Re: [Freesurfer] convert surface label on to functional image > 收件人: "Zhangyuanchao" <woshizhan...@yahoo.cn> > 抄送: freesurfer@nmr.mgh.harvard.edu > 日期: 2011年12月13日,周二,上午5:48 > > Hi Yuanchao, I would recommend that you use the aparc+aseg.mgz > file for this. This file has cortical labels already in the > volume, you just need to map them to your functional space, > something like > > mri_label2vol --aparc+aseg --temp functemplate.nii --reg > register.dat --o aparc+aseg.fmri.nii > > doug > > Zhangyuanchao wrote: > > hi, expert, > > > > By mapping a surface label to a functional template, I want to > extract the corresponding cortical gray matter region in the > functional space. I know I should use the mri_label2vol command. > > In the help page of mri_label2vol, I see some examples of this > command. > > > > 2. Convert a surface label into a binary mask in the functional > space. > > Fill in all the cortical gray matter. Require that a functional > voxel > > be filled at least 30% by the label: > > > > mri_label2vol --label lh-avg_central_sulcus.label --temp > f.nii --reg register.dat --fillthresh .3 --proj frac 0 1 > .1 --subject bert --hemi lh > > --o cent-lh.nii > > > > 3. Convert a surface label into a binary mask in the functional > space. > > Sample a 1mm ribbon 2mm below the gray/white surface. Do not > require a fill threshold: > > > > mri_label2vol --label lh-avg_central_sulcus.label --temp > f.nii --reg register.dat --proj abs -3 -2 .1 --subject bert > --hemi lh > > --o cent-lh.nii > > > > I want to extract the cortical gray matter on the functional > images corresponding to the surface label. I do not know which of > the above commands could obtain the result I want and which > parameters I should use to obtain what I want. > > > > For example 3, I do not quite catch what "Sample a 1mm ribbon > 2mm below the gray/white surface. " this sentence means. > > Thanks for your help! > > > > > > Best > > > > Yuanchao > > > > > ------------------------------------------------------------------------ > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > </mc/compose?to=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 </mc/compose?to=gr...@nmr.mgh.harvard.edu> > 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 > > > > 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. > -- 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer