# Seed-based tractography 

**URL:** https://community.mrtrix.org/t/seed-based-tractography/3098
**Category:** Uncategorized
**Tags:** tractography
**Created:** [December 5, 2019, 6:02pm UTC](https://community.mrtrix.org/t/seed-based-tractography/3098 "2019-12-05T18:02:20Z")
**Posts on this page:** 1
**Showing post:** 3

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### Author: ![LiuYuchen](https://community.mrtrix.org/user_avatar/community.mrtrix.org/liuyuchen/32/2896_2.png) [@LiuYuchen](https://community.mrtrix.org/u/LiuYuchen)
#### Post date: [October 11, 2020, 3:43am UTC](https://community.mrtrix.org/t/seed-based-tractography/3098/3 "2020-10-11T03:43:40Z")

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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`

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