Correction: We want to use func_print_timecourse_selection (not labl_save) to output the tables that contain the means across the label (with the bad vertex points excluded by previously done masking). However I think the time course functions are not compatible with the .w file format? Right, Doug?
Then, I guess the question is, how do we mask the bad vertex points out of the time course volumes? -Tommi --- Hi Bruce & Surfers, OK, we created a .w file and it looks at is should so part (a) below is solved. However we cannot seem to extract a list of functional overlay values of vertex points included in a label, which was why we needed to do this in the first place. Our goal is to get rid of some bad vertex points points in our functional overlay by creating a mask that excluded them, then load a label, and use labl_save to create a list of overlay values contained within the label (that does not include the vertex points that were masked away). Bruce, Kevin, Doug, any suggestions? Bests, Tommi > Hi Tommi, > > the w-file format is sparse and doesn't have to cover the surface, but the .mgz does. > > Bruce > > On Tue, 19 Jun 2007 [EMAIL PROTECTED] wrote: > >> Dear Fellow Surfers, >> >> Is there a FreeSurfer way to mask a stat map overlay, on the inflated cortical surface, in a way that the masked vertex points >> >> (a) are transparent in the overlay display (just the underlying dark gray/light gray curvature is showing)? >> >> (b) do not effect label-specific HDR time courses (i.e., only unmasked vertex points are taken into account when calculating the HDR curve)? >> >> We can edit the stats map with our custom script to generate the mask (e.g., mark all masked vertex points as 0 in the overlay), but it seems that in a stats map every vertex point needs to have an overlay value (i.e., we cannot just skip the vertex points we want to omit - right?). >> >> Thanks! >> >> -Tommi >> >> --- >> Tommi Raij, M.D., Ph.D. >> MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging Bldg 149, 13th St >> Charlestown, MA 02129 >> U.S.A. >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
