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help > RE: MOST tracing- how to get a binary label image
Oct 8, 2020 10:10 PM | Hanchuan Peng
RE: MOST tracing- how to get a binary label image
"if anyone knew of code to do the swc
to binary label (with radius info)?"
---- you may use the Vaa3D plugin "swc_to_mask_img" which turns a swc file into a binary mask image.
Originally posted by Claire Walsh:
---- you may use the Vaa3D plugin "swc_to_mask_img" which turns a swc file into a binary mask image.
Originally posted by Claire Walsh:
Hello
I have been using the MOST tracing plugin to trace vascular networks in my datasets. I want to optimise the parameters for it in the same way as they did in the original paper, but to do that I think I need the output of the segmentation (the vessel scooping) before the skeletonisation (radius-adjustable sphere algorithm). Or I need to create a binary image based on a slice through the swc recorded nodes and radii. I was wondering if anyone knew how I could get the plugin to output a version of the images after the vessel scooping, or if anyone knew of code to do the swc to binary label (with radius info)?
Many Thanks
Claire
I have been using the MOST tracing plugin to trace vascular networks in my datasets. I want to optimise the parameters for it in the same way as they did in the original paper, but to do that I think I need the output of the segmentation (the vessel scooping) before the skeletonisation (radius-adjustable sphere algorithm). Or I need to create a binary image based on a slice through the swc recorded nodes and radii. I was wondering if anyone knew how I could get the plugin to output a version of the images after the vessel scooping, or if anyone knew of code to do the swc to binary label (with radius info)?
Many Thanks
Claire
Threaded View
Title | Author | Date |
---|---|---|
Claire Walsh | Oct 8, 2020 | |
Hanchuan Peng | Oct 8, 2020 | |
Claire Walsh | Oct 14, 2020 | |
Hanchuan Peng | Oct 14, 2020 | |