Hi - a while back I had a lot of success using workbench in a study of tractography and anatomy. I seeded tractography from the midthickness cortical surface of mostmortem macaque data. Then I used
wb_command-convert-matrix4-to-workbench-sparse and wb_command -convert-matrix4-to-matrix2 to get a matrix of gray matter vertices to white matter voxels, and also to get trajTEMP.wbsparse files from gray matter ROI to display visually in workbench. This is straigtforward using surfaces as seeds. Now I want to expand this analysis to entities within the white matter, i.e. fiber budles. I want to seed from a set of voxels, and then make a trajTEMP.wbsparse. That would be the start, in general I want to implement, expand and enrich the ideas here https://elifesciences.org/articles/35237. convert-matrix4-to-workbench-sparse will take voxels as seeds. What I need is a matrix of seed voxels by brain voxels instead of vertices by voxels. But to make this I need a cifti template. There is no way to generate one using wb_command that I can see. I think I need to make this using the matlab code on github, and the cifti specification. But I am finding it very challenging to do this. Is there any kind of tutorial, or gentle documentation on this? best wishes Colin Colin Reveley Neuroecology and Anatomy lab Wellcome Centre for Integrative Neuroimaging Centre for Functional MRI of the Brain (FMRIB) Nuffield Department of Clinical Neurosciences John Radcliffe Hospital University of Oxford John Radcliffe Hospital University of Oxford _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
