Hi, I am having troubles getting the right options with mri_convert.
I ran: recon-all -autorecon1 -i original.mnc -s subj1 recon-all -subcortseg -s subj1
I now want to convert aseg.mgz into aseg.mnc but in the same space and with the same orientation as my original.mnc file.
My original.mnc file has the following attributes: double zspace ; zspace:comments = "Z increases from patient inferior to superior" ; zspace:step = -0.9765625 ; zspace:start = 127.418768256005 ; zspace:direction_cosines = -0.0275245718714001, -0.000514697647100001, 0.999620994692302 ; double yspace ; yspace:comments = "Y increases from patient posterior to anterior" ; yspace:step = -0.9765625 ; yspace:start = 146.850463958339 ; yspace:direction_cosines = -0.0186971433325, 0.999825193136882, -2.319984599e-08 ; double xspace ; xspace:comments = "X increases from patient left to right" ; xspace:step = 1.49999999999996 ; xspace:start = -95.4780255890689 ; xspace:direction_cosines = 0.999446254069973, 0.0186900576545041, 0.0275293837630133 ; short image(zspace, yspace, xspace) ;
Any help would be much appreciated. thanks, mishkin