Dear List, I managed to register my FreeSurfer macaque surface to Caret's F99 atlas, following and modifying the scripts in the FS-to-F99 tutorial. I would like now to overlay on it my functional activations generated by FreeSurfer, which I have as a volume in nifti format. My approach is the following:
1-Convert my functional map from volume into surface. I accomplish this using FreeSurfer's mri_vol2surf command. 2-Convert the resulting FreeSurfer surface into a Caret surface. For this I plan on using: caret_command -file-convert -fsf2c $input_FS_functional_surface $input_FS_inflated_surface $output_caret_metric_surface -stuch $hemisphere 3-Take the resulting caret metric surface and apply to it the transformation matrix to convert to F99 coordinates (this transformation matrix has been previously calculated by scripts in the FS-to-F99 tutorial) 4-Add resulting surface to my_macaque.$hemisphere.Registered-to-F99.74k_f99.spec Please correct me if you know a simpler approach, I'm new to Caret. In any case, my problem is with step 2. I get the following error: FILE CONVERSION ERROR: Error /Volumes/Polac/Desktop/fs-to-f99/120509GIZMO/func_surface/sig-rh.mgh: Functional data found for node with index larger than there are nodes in the surface. I don't know why this happens: FreeSurfer can overlay this surface file with no complains on my FS inflated surface. Do you know a possible workaround? Thank you very much! Pablo Polosecki _______________________________________________ caret-users mailing list [email protected] http://brainvis.wustl.edu/mailman/listinfo/caret-users
