Hello, My question is related to the FreeSurfer pipeline scripts and the contents of the 'subject/T1w/Native/' directories. After running the FreeSurferPipelineBatch.sh locally should I expect the surfaces to be identical to those found in 'subject/T1w/Native/' or is there an additional step of processing between these?
I have done this for a few subjects and noticed that the vertex count is different. For example for subject 100307 the file 100307.R.white.native.surf.gii has 128346 vertices and the output of the FreeSurfer pipeline, rh.white has 128900. (the vertex counts were determined by converting to ascii format using mris_convert). Ultimately, I am aiming to sample the diffusion weighted data at different cortical depths with an in house script that required freesurfer's binary surface format. I would like the best possible surfaces for subjects in their native space, the quickest method would be to convert the provided gifti files back, but as the files seem to have different vertex counts I was unsure whether they are equivalent or if they have been through some transformation? Many thanks Tara _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
