External Email - Use Caution Hi there,
Is there a way to successfully obtain FA/MD values from the hippocampus subfields? Thank you, M On Fri, Jan 12, 2024 at 2:23 PM Douglas N. Greve <dgr...@mgh.harvard.edu> wrote: > I'm not sure what you mean. The subfields are an ROI-based analysis. Are > you saying you want to do a voxel-based analysis (without reference to > ROIs)? > > On 1/9/2024 12:05 PM, Mirsol Choi wrote: > > External Email - Use Caution > > Hi there Freesurfer, > > I am currently using freesurfer to take DTI metrics (FA, MD) from > hippocampal subfields. > At this point of my exploration with freesurfer, I am able to correctly > register the hippocampal subfields and diffusion data, and obtain my FA > values from the subfields. However, this is at the individual subject > level. > > I will eventually need to register all of my samples in the same space for > me to do a group analysis. However I am unsure what the order of > registration should be for this process to be feasible. > > Does this order seem feasible for accurate analysis? > > 1) recon-all all of my subjects > 2) dt_recon all of my subjects (one of the outputs is a registration file, > which has registered the DTI data to outputs of recon-all) > 3) run the hippocampus segmentation command on all subjects > (segmentHA_T1.sh) to obtain hippocampal subfield segmentation > 4) register the segmentation file to the FA maps (output of dt_recon) > using vol2subfield command > 5) After creating a subfield-FA map for each subject, spatial normalize > the samples onto the same space using *mri_vol2vol* > > Thank you so much for taking the time reading my question. If there is a > different method to spatially normalizing my datasets, or if there is a > more optimal order of registration, I'd be happy to hear from you. > > Thank you, > M > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/1KU4jXJB1CrsIlaMiid17Ht9H8dz8aaMrgEllh75BASm41YPJpFvV9YGaQw-aq9ywLjQPjU-JEFjbZiQWZfEndP8uhI_K8iXBEN-wwTFN6ZjK7syWmvB8P5YpyqjFXSJToS93Qqgg1MSw6C82X7rFFhq057nFheAfGqu-gv0nkPsP_vD2_WtDhJFdeGBAQf7P03R9ZJw5Z70vUKbgy1lxUxP5RW6aBx9zSLvaWhcZleoNAU0n_Tp1Cx4jzMOFGjTSwDdjr6FdJnAehsOeF6nsAFwgWILwSDahrWq6e0Yo6kjc--71AFBb0tbcs27_rlaFkEkcvbXrcxUQn2g31PjLRQ/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > Please note that this e-mail is not secure (encrypted). If you do not > wish to continue communication over unencrypted e-mail, please notify the > sender of this message immediately. Continuing to send or respond to > e-mail after receiving this message means you understand and accept this > risk and wish to continue to communicate over unencrypted e-mail. >
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