External Email - Use Caution Dear Prof. Fischl,
Sorry for the lack of clarity. I used bbregister to generate a registration.dat file. I used simnibs to calculate the Efield distribution and this has the option to convert the Efield mesh files to .nii files. So I registered the high resolution T1 (from simnibs, that aligns with the Efield) to the original T1 data. Consecutively, I used tksurfer to visualize. bbregister --s Dep48_T1_origANAT --mov /home/debby/Desktop/FigModPap_Depr48/fs_HeadmeshDep48_origT1/mri/T1.mgz --reg /home/debby/Desktop/FigModPap_Depr48/register_AnatSimnToAnatOrig.dat --t1 tksurfer FigModPap_Depr48 lh pial -sdir /home/debby/Desktop -overlay /home/debby/Desktop/FigModPap_Depr48/Dep48_DLPFC_normE_CORRECTED.nii -overlay-reg /home/debby/Desktop/FigModPap_Depr48/register_AnatSimnToAnatOrig.dat -fthresh -2 -fmid 150 Best, Debby ________________________________________ Van: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] namens Bruce Fischl [fis...@nmr.mgh.harvard.edu] Verzonden: zaterdag 15 september 2018 17:21 Aan: Freesurfer support list Onderwerp: Re: [Freesurfer] Overlay electric field distribution on pial surface Hi Debby you need to give us a lot more information. What commands did you use to sample the field onto the surface? What was the output of those commands? Note that tksurfer is deprecated, so I wouldn't worry about how it looks cheers Bruce On Sat, 15 Sep 2018, Meusen - Klooster, D.C.W. wrote: > > External Email - Use Caution > > Dear all, > I am studying transcranial magnetic stimulation (TMS) and would like to > nicely visualize my TMS > induced electric fields over a pial surface, preferably using Freesurfer to > stay in line with my > other images. I have a .nii file of the electric field distribution, > registered to T1, representing > field strengths in every voxel. Visualization in freeview looks okay, but > visualization using > tksurfer does not really give the right results (most of the brain is > yellow... no field > distribution visible). I guess something goes wrong in the setting of the > colorbar. Preferably I > would like to see the field strengths (min:max) in a blue-red colorscheme. > Can anybody tell me how > to accomplish this? > Thank you very much in advance. > Best, > Debby > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer 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.
