search

knossos-project / knossos

KNOSSOS is a software tool for the visualization and annotation of 3D image data and was developed for the rapid reconstruction of neural morphology and connectivity.
https://knossos.app
GNU General Public License v2.0
72 stars 18 forks source link

Question about work-flow for segmentation #483

Open sunglyoungKim opened 5 years ago

sunglyoungKim commented 5 years ago

Hello,

Would you kindly recommend what menu should I use it for a segmentation of mitochondria?

Right now, I am trying to use segmentation paint and gave some label for mitochondria and ~mitochondria. However, I am not sure how I can get a probability map or predict the value of images.

I know it's a beta but I wish there is some example or instruction of tools.

Thank you in advance.

Optiligence commented 5 years ago

KNOSSOS is a viewer that allows to manually create sparse (skeleton) and dense (segmentation) annotations. It can be and is used as part of automated segmentation workflows.

i.e. by the guys over at https://ariadne.ai