If you are using ASL, you do not want to use Slice timing. You must compute the CBF maps and keep the slice timing intact.
Removing the time delay between slices will lead to the wrong CBF values as the CBF equations have the time delay in the equation. Best Regards, Donald McLaren ================= D.G. McLaren, Ph.D. Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School Postdoctoral Research Fellow, GRECC, Bedford VA Website: http://www.martinos.org/~mclaren Office: (773) 406-2464 ===================== This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773) 406-2464 or email. On Fri, Mar 29, 2013 at 1:08 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>wrote: > what are you using to do STC? I think by default FSL will move it to the > middle slice, but there is probably a way to make take into account the > fact that the slices are not uniform over the TR. You should contact the > list of the software you are using to get a definative answer. > doug > > > On 03/29/2013 11:37 AM, Meryem Ayse Yucel wrote: > > Hi, > > > > I am running a pASL sequence with a TR = 3 sec and TI2 = 1.8. I am > > wondering when I do slice time correction does that move all slices to > the > > mid of TR that is 1.5 s prior in time or, it moves them to the timing of > > the mid slice, which would be the mid of image acquisition aorund 0.6 sec > > prior in time with respect to the end of TR. > > > > Thank you, > > > > Meryem > > _______________________________________________ > > 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: 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. > >
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