Re: [Freesurfer] How to get surface-based AAL template

2013-04-03 Thread Martijn Steenwijk
[mailto:lagosslong1...@163.com] Verzonden: woensdag 3 april 2013 15:32 Aan: martijnsteenw...@gmail.com Onderwerp: Re:RE: [Freesurfer] How to get surface-based AAL template Dear Martijin: Indeed, there are holes in generated labels on surface after registration. I have tried commands

Re: [Freesurfer] How to get surface-based AAL template {Disarmed}

2013-04-01 Thread MCLAREN, Donald
m a training set with > mris_ca_train. > >> Now I can segment surfaces just by calling mris_ca_label which works > >> flawlessly and consistent throughout subjects. > >> > >> > >> > >> Best, > >> > >> Martijn > >> >

Re: [Freesurfer] How to get surface-based AAL template

2013-04-01 Thread Jürgen Hänggi
gt; >> flawlessly and consistent throughout subjects. >>> >> >>> >> >>> >> >>> >> Best, >>> >> >>> >> Martijn >>> >> >>> >> >>> >> >>> >> Van: fr

Re: [Freesurfer] How to get surface-based AAL template

2013-04-01 Thread ZhiLiangLong
;> [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] Namens ZhiLiangLong >> Verzonden: zaterdag 30 maart 2013 16:25 >> Aan: Garikoitz Lerma-Usabiaga >> CC: Freesurfer >> Onderwerp: Re: [Freesurfer] How to get surface-based AAL template >> >> >> >> Dear

Re: [Freesurfer] How to get surface-based AAL template

2013-03-31 Thread Thomas Yeo
urfer-boun...@nmr.mgh.harvard.edu > [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] Namens ZhiLiangLong > Verzonden: zaterdag 30 maart 2013 16:25 > Aan: Garikoitz Lerma-Usabiaga > CC: Freesurfer > Onderwerp: Re: [Freesurfer] How to get surface-based AAL template > > > > Dear Gari: > >

Re: [Freesurfer] How to get surface-based AAL template

2013-03-31 Thread Martijn Steenwijk
Van: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] Namens ZhiLiangLong Verzonden: zaterdag 30 maart 2013 16:25 Aan: Garikoitz Lerma-Usabiaga CC: Freesurfer Onderwerp: Re: [Freesurfer] How to get surface-based AAL template Dear Gari: T

Re: [Freesurfer] How to get surface-based AAL template

2013-03-30 Thread ZhiLiangLong
Dear Gari: Thank you for give me suggestions patiently. i figured it out as you suggested. it works well. I have one more question: Do you know there are published papers which use the surface-based aal template (or something like this) to do research (e.g. cortical network analysis based on

Re: [Freesurfer] How to get surface-based AAL template

2013-03-29 Thread Garikoitz Lerma-Usabiaga
Hi Zhiliang, 1- well, I just recon-all-ed their subject again with the newest version. Recon-all -s Colin -all 2- maybe Doug or some other will answer this question better. I don't know the exact differences between fs mni305 and fs mnicolin27. What I know is that going the fsaverage path I couldn'

Re: [Freesurfer] How to get surface-based AAL template

2013-03-27 Thread ZhiLiangLong
Dear Br: Thanks for your help. I have downloaded Colin 27 subject, and the Surfrend toolbox. But I still have some questions about the process. 1. You said I need transform the Colin 27 to the latest FS version (v.5.2). But i don't know how to do this. It is helpful if you can provide some

Re: [Freesurfer] How to get surface-based AAL template

2013-03-26 Thread Garikoitz Lerma-Usabiaga
Hi, In my case transformation to fsaverage did not work very well. What I did was: - from Surfrend page download Colin 27 subject and transform it to the latest version (now 5.2) - with bbregister obtain register.dat between this Colin 27 subject and SPM-s single subject t1.nii, which is the 2mm v

[Freesurfer] How to get surface-based AAL template

2013-03-26 Thread ZhiLiangLong
Hi all; I need a suface-based aal template which is compatible with FS surface file. Is there a way i can get the surface-based aal template? I have an idea, that is to just transform the AAL template (.nii file) in MNI space onto the surface template (e.g. fsaverage template) in FS. Is it