Someone sent me a different kind of T2w image and it didn't work so well, so we need to know what kind of image this is.
Peace, Matt. On 9/27/13 1:33 PM, "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> wrote: >nope, pretty much only with T2-space with and without a flair pulse >On Fri, >27 Sep 2013, Matt Glasser wrote: > >> Also, what kind of T2w sequence is this? I think we've mostly tested it >> with the T2-SPACE (unless Bruce has tested with other things). >> >> Peace, >> >> Matt. >> >> On 9/27/13 12:58 PM, "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> wrote: >> >>> Hi Michael >>> >>> that looks pretty bad! What is the resolution of the T2? The T1 that >>>you >>> overlay on also looks somewhat blurry - what was it? >>> >>> Bruce >>> >>> >>> On Fri, 27 Sep >>> 2013, Michael Waskom wrote: >>> >>>> Hi, just to make the problem a bit more transparent, I took a second >>>> screenshot of the slices with the pial surface from the -T2pial run in >>>> red >>>> and the pial surface from the normal run in >>>> cyan: https://dl.dropbox.com/s/jv8rcxnq50tdac6/bad_slice_both_pial.png >>>> >>>> On Fri, Sep 27, 2013 at 10:37 AM, Michael Waskom >>>><mwas...@stanford.edu> >>>> wrote: >>>> Hi, >>>> I'm using FS 5.3 and trying to use hires T2-weighted scans to refine >>>> the pial mesh. >>>> >>>> However, I've found that using the T2 is causing rather dramatic >>>> problems with the pial surface. >>>> >>>> I processed the same subject's data with and without the -T2pial >>>> option. Here are links to a) pial surface image b) slices through the >>>> volume and c) the recon-all.log: >>>> >>>> With -T2pial >>>> ---------------- >>>> https://dl.dropbox.com/s/rtjgplajfptr4xb/bad_surf_withT2.png >>>> https://dl.dropbox.com/s/d7so5qtujgg8j80/bad_slice_withT2.png >>>> https://dl.dropbox.com/s/7o00jy014hihrgu/recon_log_withT2.txt >>>> >>>> Without -T2pial >>>> -------------------- >>>> https://dl.dropbox.com/s/51y15kogecltfbi/bad_surf_noT2.png >>>> https://dl.dropbox.com/s/3gps45kp0ngkuli/bad_slice_noT2.png >>>> https://dl.dropbox.com/s/6jih6f8fh4nwh0k/recon_log_noT2.txt >>>> >>>> The release notes for 5.3 claim that the T2 is registered to the T1 >>>> before refining the surface, but I actually can't find any evidence of >>>> that sequence in the log file. For this subject, the T1 and T2 came >>>> from different scan sessions, although I have other data where they >>>> were acquired in the same session that have similar, if less dramatic, >>>> problems with the pial surface. >>>> >>>> Any ideas? >>>> >>>> Michael >>>> >>>> >>>> >>>> _______________________________________________ >>> 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
