Is this a preprocessed (whole brain regression, bandpass filter, etc) rest-state volume? If so, I would suggest using the volume before the preprocessing (which works well for me).
Thanks, Thomas On Jul 2, 2010, at 9:58 AM, Corey Keller wrote: > Hi Bruce, > > Thanks for the info. I am trying to register a resting state > functional nifti file. I ran bbregister but it was not well aligned > (pictures are attached). Our thought is that the contrast was not > strong enough for freesurfer to detect enough common points with the > anatomical volume. If we feed another example > functional file with better contrast, could we then use that register > file to apply to our data? Any thoughts on how we can do this > betterwithout manually aligning? Thanks again. > > Best, > Corey > > On Fri, Jul 2, 2010 at 9:30 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu > > wrote: >> Hi Corey, >> >> yes, or you can try bbregister to do it automatically. >> >> cheers >> Bruce >> On Fri, 2 Jul 2010, Corey Keller wrote: >> >>> Hi Freesurfers, >>> >>> I know this is probably an easy question, but I am having some >>> trouble >>> with it. I am trying to plot functional data (in nifti format) >>> onto a >>> pial or inflated surface in matlab. I am uring mri_vol2surf but am >>> missing the register file. Do I find this from registering the >>> functional data to the anatomical surface via tkregister? Thanks. >>> >>> -Corey >>> _______________________________________________ >>> 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. >> >> > < > sagittal > .png > > > < > Screenshot_horizontal > .png>_______________________________________________ > 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
