Hi Bruce, Yes, I do understand that is coronal, but there is an actual rotation apart from an orientation to coronal. You can read it from the off-diagonal matrix elements.
Cheers, Ed On 6 Feb 2014, at 14:36, Bruce Fischl wrote: > yes, we reorient it to be coronal as part of the "conform" process > > cheers > Bruce > On Thu, 6 > Feb 2014, Ed Gronenschild wrote: > >> Hi, >> >> Using recon-all (freesurfer v5.1.0, MacOSX10.6) I noticed a rotation >> of the T1 data early in the pipeline, i.e., converting rawavg.mgz to >> orig.mgz., see excerpt of output of mri_info below >> >> rawavg.mgz: >> >> xform info: x_r = 0.0081, y_r = -0.0913, z_r = 0.9958, c_r = >> 0.0813 >> : x_a = -0.9999, y_a = -0.0066, z_a = 0.0076, c_a = >> 14.8386 >> : x_s = 0.0059, y_s = -0.9958, z_s = -0.0913, c_s = >> 13.1335 >> >> orig.mgz: >> >> xform info: x_r = -1.0000, y_r = -0.0000, z_r = 0.0000, c_r = >> 0.0813 >> : x_a = 0.0000, y_a = -0.0000, z_a = 1.0000, c_a = >> 14.8386 >> : x_s = 0.0000, y_s = -1.0000, z_s = 0.0000, c_s = >> 13.1335 >> >> >> Is that the default way of processing the data? >> >> Cheers, >> Ed >> >> >> _______________________________________________ >> 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
