That command looks right. If the unusual volume was derived in a voxel-for-voxel way from the DTI, then its registration should be just as good
On 04/20/2017 12:11 PM, Jacobson, Aaron wrote: > Thanks a lot! That worked well! The registration is not perfect, but it is > much better than the original. > > I used the command: > > mri_vol2vol --mov PathTo/UnusualData.nii.gz --targ PathTo/orig.nii.gz > --interp nearest --o PathTo/UnusualData_toT1reg.nii.gz --reg PathTo/dti2t1.dat > > Is there anything you would suggest that I run differently? > > Aaron D. Jacobson > Technical Operations Manager > UCSD Center for Functional MRI > 9500 Gilman Drive > La Jolla CA 92093-0677 > > > > On 4/20/17, 8:42 AM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of > Douglas N Greve" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of > gr...@nmr.mgh.harvard.edu> wrote: > > Yes, when using mri_vol2vol or mri_vol2surf, spec the unusual data set > as the --mov but pass the bbregister registration to the --reg flag. > > > On 04/20/2017 11:41 AM, Jacobson, Aaron wrote: > > Absolutely, thanks for looking into this. > > > > I have 3 datasets: > > > > 1. T1 anatomical > > 2. DTI > > 3. Unusual dataset (derived from DTI) that does not have a contrast > that bbregister can use to register the data > > > > I want to register the unusual dataset (#3) to the T1 anatomical. > > > > Since the unusual dataset cannot be read successfully by bbregister, I > registered the DTI to the anatomical and I would like to use the registration > parameters from that registration (DTI to t1) to register the unusual dataset > to the T1. > > > > Is this a possibility? > > > > Aaron D. Jacobson > > Technical Operations Manager > > UCSD Center for Functional MRI > > 9500 Gilman Drive > > La Jolla CA 92093-0677 > > > > > > > > On 4/20/17, 8:09 AM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf > of Douglas N Greve" <freesurfer-boun...@nmr.mgh.harvard.edu on behalf of > gr...@nmr.mgh.harvard.edu> wrote: > > > > I don't know what you are trying to do. Can you elaborate? > > > > > > On 04/19/2017 07:26 PM, Jacobson, Aaron wrote: > > > Hello, > > > > > > I am new to freesurfer. I have been looking for an answer to > this > > > issue for days. > > > > > > I ran bbregister to align a dti scan to a t1 struc. > > > > > > It worked beautifully. > > > > > > I am trying to register a very abnormal looking dataset to the > t1 > > > using the registration parameters created during the first > bbregister > > > (dti to t1). > > > > > > I have been unable to figure this out, but it seems like it > must be a > > > common procedure. Any advice would be greatly appreciated. > > > > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > Freesurfer@nmr.mgh.harvard.edu > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > -- > > Douglas N. Greve, Ph.D. > > MGH-NMR Center > > gr...@nmr.mgh.harvard.edu > > Phone Number: 617-724-2358 > > Fax: 617-726-7422 > > > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > Outgoing: > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > > > _______________________________________________ > > 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. > > > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > 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 > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
