External Email - Use Caution [image: Screenshot 2023-11-22 at 1.32.53 PM.png] doesn't allow me to adjust the threshold to negative values, for example t-values between -3 and 3.
On Wed, Nov 22, 2023 at 1:26 PM Douglas N. Greve <dgr...@mgh.harvard.edu> wrote: > Have you tried adjusting the threshold. Open the configure overlay option. > Also, sending a pic would be helpful (and the contents of tk.dat) > > On 11/22/2023 11:29 AM, Atena Akbari wrote: > > External Email - Use Caution > Dear freesurfer team, > > I want to overlay the activation map that I got from SPM on the inflated > surface. The command I use is: > > > "mri_vol2surf --mov spmT_funcmap.nii --ref > subj01/mri/orig.mgz. --reg tk.dat --hemi rh --o flodername" > > > in which, I got the registration file (tk.dat) by aligning my > functional mean image to the orig.mgz in tkregisterfv. > > > now the problem is when I overlay the activation map on the inflated > surface, I can only see the voxels with positive t-values. I can't see the > negative ones. I cannot change the threshold values provided by "configure > overlay" to negative values. Also, changing the "z-score" option next to > the overlay configuration doesn't make any difference. can you help me with > this, please? > > > Thanks a lot, > > Atena > > _______________________________________________ > Freesurfer mailing > listfreesur...@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/1IVPIDMFljkbz03OWhhpL1VpAXdX7qCtOHbekm0TiQFRGhN6pDQSWMYqFMIg11x7H0RSn55S0mPKkcGBfgShDP4Fa1uJGvv471Pu7A3lvXY03naNTsfXmoVy1gE75cKQsOU0JolHEvTZQ3RUy7NKl6mob802-R1J8lHPmdpAQYi8cQ3IuOzLsR7uoWqjzINd7rLry7o93NtTv6gI3CLqN56QnaJcTM6r_bPY3Czb-f2QMJgOiuggpckVZTpsW64nmItJn9SxHgNbqNY5y0WuNE70ew-iq046b_Nmg3mcrOETzh0FFrIfOoB8WpO-XAzFGos3eBKRHQX9CCRxPvioOKQ/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > 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 Mass General > Brigham Compliance HelpLine at > https://secure-web.cisco.com/1P0Nb7TleS5WyZJu-srhx4FTx8V-yKXC6caZoWiHRciFkMiTVRveY3mckTiQUbHyEwZtJAVyJmSBir2L6fG6yYUf-k_NFt2fIsgZzvmwM6PeQW36670jLmpRz3oA_L4sG8F1pSfLtwUfXT6xVGaJ2pYQnsDNox5aT51A9Syuc7cXoLW5P0yL5XthqjTdONXbgHCI9wZi6d57x9CG6s06kCl0Boja8N7t8IokkeDCdtMnqEpALkfA3qc2c04ekb8RLkU5F36hYO1S2-nyiZXyZIsM0dfNB46yd1jAALCmh1bAFAnToieKOT-eucGl9bFRgfxziMWp30ZUGffcOJvN5-A/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline > < > https://secure-web.cisco.com/1P0Nb7TleS5WyZJu-srhx4FTx8V-yKXC6caZoWiHRciFkMiTVRveY3mckTiQUbHyEwZtJAVyJmSBir2L6fG6yYUf-k_NFt2fIsgZzvmwM6PeQW36670jLmpRz3oA_L4sG8F1pSfLtwUfXT6xVGaJ2pYQnsDNox5aT51A9Syuc7cXoLW5P0yL5XthqjTdONXbgHCI9wZi6d57x9CG6s06kCl0Boja8N7t8IokkeDCdtMnqEpALkfA3qc2c04ekb8RLkU5F36hYO1S2-nyiZXyZIsM0dfNB46yd1jAALCmh1bAFAnToieKOT-eucGl9bFRgfxziMWp30ZUGffcOJvN5-A/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline> > . >
tk2.dat
Description: Binary data
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