Re: [Freesurfer] mir_vol2surface registration file error

hapel Hill email (W): srish...@email.unc.edu skype: srishti.goel12 On Mon, Mar 19, 2018 at 6:14 AM, Charlotte Grosse Wiesmann < wiesm...@cbs.mpg.de> wrote: > Hi Shrishti, > > 1) by recon-all I meant recon-all in the freesurfer pipeline ( > https://surfer.nmr.mgh.harvard.edu

[Freesurfer] mir_vol2surface registration file error

rch Specialist Child Imaging Research and Life Experiences Lab University of North Carolina at Chapel Hill email (W): srish...@email.unc.edu skype: srishti.goel12 On Sun, Mar 18, 2018 at 10:55 AM, Charlotte Grosse Wiesmann < wiesm...@cbs.mpg.de> wrote: > Hi Srishti, > > I had a sim

Re: [Freesurfer] mir_vol2surface registration file error

Hi Srishti, I had a similar problem recently, so I will try to help. To compare your maps with the surface maps SN_like_cortical_lh.gz of the others you need to map your volume to the surface of the same subject they are using. That is, you first have to run recon-all on that subject (unless th

Re: [Freesurfer] mri_vol2surf - what register.dat file to use?

ld be able to use --regheader ANTSaverage (assuming ANTSaverage is the name you gave it when running recon-all) On 03/12/2018 01:32 PM, Charlotte Grosse Wiesmann wrote: > Hi Doug, > > I was trying to map my volume mask from my study-specific average subject > template space to th

[Freesurfer] mri_vol2surf - what register.dat file to use?

want to do FDR, then run mri_fdr. On 1/29/18 12:17 PM, Charlotte Grosse Wiesmann wrote: > Dear freesurfer experts, > > I would like to restrict my surface analyses (cortical thickness and surface > area) to a mask from an fMRI meta-analysis using my own subject-specific > temp

Re: [Freesurfer] REPOST: mri_mcsim with mask - How do I map a volume mask to the surface space for mri_mcsim using my own template?

verage (make sure to --no-rev since you are mapping a mask). If you want to do FDR, then run mri_fdr. On 1/29/18 12:17 PM, Charlotte Grosse Wiesmann wrote: > Dear freesurfer experts, > > I would like to restrict my surface analyses (cortical thickness and surface > area) to a mask fro

[Freesurfer] REPOST: mri_mcsim with mask - How do I map a volume mask to the surface space for mri_mcsim using my own template?

Dear freesurfer experts, I would like to restrict my surface analyses (cortical thickness and surface area) to a mask from an fMRI meta-analysis using my own subject-specific template that I created with ANTS. So far, I have used Qdec and wanted to correct for cluster size running the Monte Car

[Freesurfer] Map mask from volume to surface for small volume correction in surface analyses (using my own template)

Dear freesurfer experts, I would like to restrict my surface analyses (cortical thickness and surface area) to a mask from an fMRI meta-analysis using my own subject-specific template that I created with ANTS. So far, I have used Qdec and wanted to correct for cluster size running the Monte Car