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
