Hi Bruce, I was hoping to just do one processing, but perhaps as you suggest that's not the best idea (the T1 has 136 slices whereas the other sequences have 48). I have acquired these sequences to identify lesions in some participants and am trying to figure out how to register/align the other 3 sequences to the T1.
I'm also a bit confused about running preprocessing on the scans with lesions. I understand that I should do the lesion tracing and generate lesion maps prior to preprocessing, but am not sure how to transform the lesion map to normalized space, and then run the rest of the preprocessing. Do you have any suggestions? Thanks, Caroline On Mon, Jun 16, 2014 at 2:11 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Caroline > > do you want to pocess each one independently, or are you hoping to motion > correct and average them for just one processing? If the latter, you > probably don't want to do it if the sequences are substantially different. > > cheers > Bruce > > > > On Mon, 16 Jun 2014, Caroline Lewis > wrote: > > > Hi, > > > > I want to perform recon-all on four different structural sequences for > the > > same participant. Three of the sequences have the same number of slices, > > whereas the T1 has fewer slices, so when I input the different sequences > > with the recon-all command, I get the following error: ERROR: inputs have > > mismatched dimensions! > > > > Is there a way to bypass this or make each sequence have the same number > of > > slices? And if so, will this affect data quality? > > > > Many thanks, > > > > Caroline > > > > > _______________________________________________ > 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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