There is a new retinotopic mapping stream. I have not fully documented it yet. You now analyze the retinotopy data like you would other functional analysis in fsfast. First create an "analysis" with mkanalysis-sess. Run it with -help to get info on retinotopy-specific parameters. Eg,
# Create analysis for the left hemi (30 sec period), 5mm surface-based smoothing mkanalysis-sess -a rtopy.lh -surface self lh -TR 2 \ -retinotopy 30 -paradigm rtopy.par -fwhm 5 # Create analysis for the right hemi mkanalysis-sess -a rtopy.rh -surface self rh -TR 2 \ -retinotopy 30 -paradigm rtopy.par -fwhm 5
# Analyze both (this will do preprocessing too) selxavg3-sess -a rtopy.lh -sf ... selxavg3-sess -a rtopy.rh -sf ...
# diplay sig maps tksurfer-sess -a rtopy.lh -s sessid
# display raw angle tksurfer-sess -a rtopy.lh -s sessid -map angle
# display raw angle tksurfer-sess -a rtopy.lh -s sessid -map angle.masked
# create the field sign fieldsign-sess -a rtopy.lh -s sessid -occip
# display the field sign tksurfer-sess -a rtopy.lh -s sessid -fieldsign
Yuhong Jiang wrote:
This is very nice. I just tried to do an analysis in the new release under Mac OS X (10.6.4, Intel). However, retinotopic mapping would not run. I did "sfa-sess -a rtopy -sf sessid -df sessdir". The error message says "sfa-sess: Command not found." Any idea why this is the case? Thanks.
-Yuhong
On Mon, Aug 16, 2010 at 11:04 AM, Nick Schmansky <nicks@nmr.mgh.harvard.edu mailto:nicks@nmr.mgh.harvard.edu> wrote:
Announcement! There is a new release of FreeSurfer, v5.0.0! Features and fixes are described in the ReleaseNotes page: http://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes It is available for download at: http://surfer.nmr.mgh.harvard.edu/fswiki/DownloadAndInstall Please pose questions about the release to the freesurfer mailing list. The FreeSurfer Team _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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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