If you run something like this: tksurfer-sess -a rtopy.self.lh -s sessid -map angle it will show you the angle in radians (I think). Thresholding this map is going to be tricky in tksurfer (can't remove things above a value). An alternative is to run mri_binarize on the angle file itself. mri_biniarize allows you to set upper and lower thresholds. You can then run tksurfer on the result. doug
Erhan Genc wrote: > Hi Doug, > > I see. My eccen run has 8 cycles of an expanding ring and each cycle > take about 64 sec. So in general the color "red" would show the > average of the 8 cycles for the first let say 10 sec. I know from my > protocol which eccen (1°-12° per hemisphere) was shown when, but how > can I exactly find a area of a specific eccentricity on my surfce > without using the color wheel? > > I just would like to draw a label consisting 1°-5° in the visual field. > > Can you recommend me another strategy? > > Best, > > Erhan > > 2011/11/1 Douglas N Greve <gr...@nmr.mgh.harvard.edu>: > >> Hi Erhan, the results are collapsed across all time points, so no color >> represents a particular time point. The colors in the color wheel are hard >> to interpret, which is why I recommend against using the color wheel. If you >> click on a point, I believe the value (phase) will be displayed in the >> control panel. >> doug >> >> Erhan Genc wrote: >> >>> Dear freessurfer experts, >>> >>> I created my polar und eccen maps using the retinotopy pipeline. I >>> also visualize them using the the rtview command on the inflated >>> surface. But how can I interpret the colors (red to blue in the RYGB >>> Wheel) in my eccen map? Which color refers to which timepoint (volume) >>> of my functional run? >>> >>> Best, >>> >>> Erhan >>> >>> >>> >> -- >> 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 >> >> >> >> 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. >> >> >> > > > > -- 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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
