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Published 20 hours ago • verified publisher icon MICA-MNI

Incorporate FastSurfer

Open thomshaw92 opened this issue 1 year ago • 1 comments

  • What is the current behaviour?

  • Freesurfer is slow and fix_topology is a problem.

  • What is the motivation / use case for changing the behaviour?

  • Speedup, no vertex correction issues in fix_topology

  • Other information
    FastSurfer https://deep-mi.org/research/fastsurfer/ would be a great alternative to Freesurfer cortical parc. and segmentation. https://github.com/deep-mi/FastSurfer Drawbacks: It resamples T1w images to 1mm iso if they are hires - could include an option for choosing either stream (free vs fastsurfer)

thomshaw92 avatar Sep 17 '22 03:09 thomshaw92

We hear you! and we are working in the incorporation of fastsurfer as well as other CNN based strategies to decrease the processing time of the pipeline and accuracy. We still have some issues to solve and it will take some time for this future release. Currently you can follow the implementation on our development branch.

rcruces avatar Oct 19 '22 17:10 rcruces