Seed-based tractography

3

Hi, rsmith

It seems that the problem of method_01 is using sift to seed-based tractography, am I right?
I was doing a similar research to generate tracks seeded from VTA to whole GM, thus can get a connection map of GM for VTA.
Is there any problem with this pipeline：

  1. tckgen FOD.mif VTA_seed_tracks.tck -seed_image VTA.nii -act 5TT.mif -backtrack -crop_at_gmwmi -seed_unidirectional
  2. tckmap VTA_seed_tracks.tck -template dwi.nii -ends_only connection_map.nii