Hi Octavian 1. Not sure - you should try them. If you have reasonable surfaces I think bbreg lets you specify masks to ignore, which should be giant help in this scenario. On the other hand, mri_robust_register does this automatically. They are both relatively fast so why not try and see?
2. Same answer as before. mri_robust_register has flags to tell it to use an inter-modal similarity function, but you can also tell bbregister it is a T2 and it should do a good job (and implicitly register to the T1 since it is already aligned with the surface). 3. I'm not sure what you mean - can you explain further? cheers Bruce On Sun, 23 Feb 2020, Octavian Lie wrote: > External Email - Use Caution > > Dear All, > > I need to register: > 1. T1.mgz to a T1 postresection volume (no contrast), with large > resection. Which one should I use, mri_robust_register, or bbregister, > if the latter, which is the better initiator (nmi, spm, fsl)? > > 2. T1.mgz to a 3D FLAIR SPACE sequence (outside of the flair space > recon-all flag), which FS registration tool should I use? > > 3. I then need to mask the coregistered T1 postresection with a T1.mgz mask. > > I would appreciate commands (either names, or full command lines), > please advise. > > Thank you, > Octavian > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer