Hi Bruce, Thank you for the prompt reply. I tried using mri_surf2vol : mri_surf2vol --surfval qdec/g1_g2_lh_06out/lh-Diff-grupo1-grupo2-Intercept-thickness/sig.mgh --identity fsaverage --template fsaverage/mri/T1.mgz --hemi lh --o teste_sig.mgz gdiagno = -1 Using identity matrix for registration Qa2v: SurfXYZ to VolCRS: ------------------------------ -1.000 0.000 0.000 128.000; 0.000 0.000 -1.000 128.000; 0.000 1.000 0.000 128.000; 0.000 0.000 0.000 1.000; -------------------------------------------------- subjects dir /Applications/freesurfer/subjects/dados_Riba/ surface value path qdec/g1_g2_lh_06out/lh-Diff-grupo1-grupo2-Intercept-thickness/sig.mgh hemi lh mksurfmask 0 projfrac 0 outvol path teste_sig.mgz template path fsaverage/mri/T1.mgz ------- Anat2Vol Registration (TkReg)---- 1.000 0.000 0.000 0.000; 0.000 1.000 0.000 0.000; 0.000 0.000 1.000 0.000; 0.000 0.000 0.000 1.000; ----------------------------------------- height = 256 width = 256 depth = 256 xsize = 1.000000 ysize = 1.000000 zsize = 1.000000 cdc = -1.000000 0.000000 0.000000 rdc = 0.000000 0.000000 -1.000000 sdc = 0.000000 1.000000 0.000000 xyz0 = 0.000000 0.000000 0.000000 Gdiag_no -1 Reading surface /Applications/freesurfer/subjects/dados_Riba//fsaverage/surf/lh.white Done reading source surface INFO: reading qdec/g1_g2_lh_06out/lh-Diff-grupo1-grupo2-Intercept-thickness/sig.mgh as MGH Done loading source values (nvtxs = 163842) INFO: mapping vertices to closest voxel INFO: resampling surface to volume INFO: sampled 73965 voxels in the volume INFO: writing output volume to teste_sig.mgz done
And then, use tkmedit to view it: [Fernanda-Palhanos-Mac-Pro:freesurfer/subjects/dados_Riba] fernandapalhano% tkmedit fsaverage teste_sig.mgz mghRead(/Applications/freesurfer/subjects/dados_Riba//fsaverage/mri/teste_sig.mgz, -1): could not open file Error: Loading volume teste_sig.mgz Couldn't read the anatomical volume. Tkmedit couldn't read the volume you specified. This could be because the image format wasn't recognized, or it couldn't find the proper header, or the file(s) were unreadable, or it was the wrong size. Am I using wrong parameters in mri_surf2vol? Thanks again, Fernanda On Mon, Feb 21, 2011 at 5:30 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote: > Hi Fernanda > > if that's a surface overlay you'll need to sample it into the volume with > mri_surf2vol > > cheers > Bruce > > > > On Mon, 21 Feb 2011, Fernanda Palhano wrote: > > Hello, >> >> Does anyone knows if is it possible to overlay the surface file sig.mgh >> onto >> a T1 vol? >> I tried the command: >> tkmedit fsaverage T1.mgz -fthresh 2 -fmax 5 -overlay >> qdec/rh-Diff-grupo1-grupo2-Intercept-thickness/sig.mgh (where 2 and 5 were >> the thresholds I used in qdec), >> but it seems like I have only one point of the sig.mgh (in the slice 128) >> which is outside the volume. >> There's another way to do this? >> >> Thanks for the help! >> >> Fernanda >> >> > > 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. > >
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