External Email - Use Caution Thanks Doug! Could you clarify what you mean by the registration already being in anat-to diffusion? The only thing I did was to run bbregister using B0 as the -mov image and saving the reg.lta. If I understood correctly the registration matrix should be diffusion-to-freesurfer, shouldn't it? Now I ran lta_convert --inlta reg.lta --invert --outfsl freesurfer-to-diff.mat. I believe freesurfer-to-diff encodes the transformation from freesurfer space to diffusion space, is that correct? Best regards, Sam
On Tue, Jul 23, 2019 at 3:15 AM Greve, Douglas N.,Ph.D. < dgr...@mgh.harvard.edu> wrote: > Use lta_convert with --invert. BTW, the registration matrix is already > anat-to-diffusion > > On 7/22/2019 7:50 PM, Sam W. wrote: > > External Email - Use Caution > Thanks Doug! I'll use lta then, but which tool do you recommend I use for > inverting the matrix in order to have a freesurfer-to-diffusion > registration matrix? bbregister does not seem to offer the option to invert > matrices. Is tkregister2 the preferable tool to use here? I realize there > is an --lta-inv ltafile option. Would this be correct?: > > tkregister2 --mov B0.nii.gz --fstarg --fslregout fsl.mat --s sub01 > --lta-inv reg.lta > > I'd like to output an FSL-style registration matrix because I intend to > use some of FSL tools. > > Thanks for your help! > Sam > > On Mon, Jul 22, 2019 at 10:35 PM Greve, Douglas N.,Ph.D. < > dgr...@mgh.harvard.edu> wrote: > >> In most of the tools there is an option to invert the matrix before you >> apply it. If you save the registration matrix as an LTA instead of DAT, >> then most of the tools will figure out the directionality. >> >> On 7/22/19 4:24 PM, Sam W. wrote: >> > >> > External Email - Use Caution >> > >> > Hi, >> > I would like to create a registration matrix from orig.mgz to >> > diffusion space. I created a reg file with >> > >> > bbregister --t2 --init-fsl --reg /data/FS/sub01/reg.dat --mov >> > /data/FS/sub01/B0.nii.gz --s sub001 >> > >> > but how can I invert this registration so that the transformation goes >> > from freesurfer to diffusion space? >> > Thanks! >> > Sam >> > >> > _______________________________________________ >> > 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 > > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://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
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