Re: [Freesurfer] result is L-R fliped in native space
Dear doug: I overlaped the transformed vol ROI to the original T1 image, both in native space, then surprisingly found out that lh labeled ROI was on the right hemisphere but contained the exact lh sulcus or gyrus information. I converted the spacific label to ROI based on white/grey boundry, so I can confirmed the quality of my result with the help of morphormetric information of that boundry just by eyes. best, cowen 2013-10-22 wen.zhang55 发件人：Douglas N Greve 发送时间：2013-10-22 23:04 主题：Re: [Freesurfer] result is L-R fliped in native space 收件人："freesurfer" 抄送： How are you determining that they are lr flipped? On 10/21/2013 11:18 PM, wen.zhang55 wrote: > Dear Freesurfer： > I am now working in converting cortical labels from freesurfer to > volumetric masks. First i gained the registration matrix by > bbregister, then applied those matrix to tranform ROI labels into > native space using label2vol. However, when i got the final .NII > results, both of them turn out to be L-R fliped. (left ROI on the > right hemisphere). From my understanding, freesurfer will automaticly > recognize the head direction of the original T1 images and my original > T1 data contains the flip information due to the way we scaned. > So why this happen? By the way, the recon-all results did good. > Thank you very much! > best, > Cowen > 2013-10-22 > > wen.zhang55 > > > ___ > 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 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.
Re: [Freesurfer] result is L-R fliped in native space
How are you determining that they are lr flipped? On 10/21/2013 11:18 PM, wen.zhang55 wrote: > Dear Freesurfer： > I am now working in converting cortical labels from freesurfer to > volumetric masks. First i gained the registration matrix by > bbregister, then applied those matrix to tranform ROI labels into > native space using label2vol. However, when i got the final .NII > results, both of them turn out to be L-R fliped. (left ROI on the > right hemisphere). From my understanding, freesurfer will automaticly > recognize the head direction of the original T1 images and my original > T1 data contains the flip information due to the way we scaned. > So why this happen? By the way, the recon-all results did good. > Thank you very much! > best, > Cowen > 2013-10-22 > > wen.zhang55 > > > ___ > 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] result is L-R fliped in native space
Dear Freesurfer： I am now working in converting cortical labels from freesurfer to volumetric masks. First i gained the registration matrix by bbregister, then applied those matrix to tranform ROI labels into native space using label2vol. However, when i got the final .NII results, both of them turn out to be L-R fliped. (left ROI on the right hemisphere). From my understanding, freesurfer will automaticly recognize the head direction of the original T1 images and my original T1 data contains the flip information due to the way we scaned. So why this happen? By the way, the recon-all results did good. Thank you very much! best, Cowen 2013-10-22 wen.zhang55___ 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.
