I think this is due to the fact that there is some geometry information in our surface format that is probably not present in gii. Ruopeng, can you verify? doug
On 02/20/2014 05:11 PM, Karen Marie Sandø Ambrosen wrote: > Hi again, > > When I convert a surface to .gii with mris_convert, it is shifted > compared to the original surface when loaded into freeview (see previous > mail). Does anyone know how to solve this? > > Best, > Karen > > On 02/18/2014 10:01 AM, Karen Marie Sandø Ambrosen wrote: >> Hi Freesurfer experts, >> >> I am trying to run tracktography from freesurfer labels using >> probtrackx2 in fsl. To convert the labels to surfaces I use the >> label2surf command as recommended on the fslwiki. To use the label2surf >> command I need to convert the surface, e.g. lh.white into a >> fsl-compatible format using mris_convert: >> >> mris_convert lh.white lh.white.gii >> >> When I load lh.white and the created lh.white.gii into freeview the two >> are not aligned. Aren't they suppose to be similar when lh.white.gii is >> use in the label2surf command? Do I need additional arguments in the >> mris_convert command? >> >> Best, >> Karen >> _______________________________________________ >> 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
