remove the branch completely inside the soma - Githubissues

seung-lab / RealNeuralNetworks.jl

A unified framework for skeletonization, morphological analysis, and connectivity analysis.

Apache License 2.0

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remove the branch completely inside the soma #16

Closed xiuliren closed 6 years ago

xiuliren commented 7 years ago

there exist a redundent branch inside some

xiuliren commented 7 years ago

also should only have one root node inside soma.

possible algorithm:

find terminal points of each tree
if all the terminal distance is less than 2x soma radius, delete the sub tree

xiuliren commented 7 years ago

an example to fix:

xiuliren commented 7 years ago

added split function to prune the tree c18f66254e1c22521e97f67f0920852d07ec58ca

xiuliren commented 6 years ago

implemented but did not prove the effectiveness by visualization.

xiuliren commented 6 years ago

current removing strategy is not working well, still seeing such branches inside soma!

xiuliren commented 6 years ago

starting the skeletonization from the maximum DBF, which should be the cell body center, should reduce this artifact.

xiuliren commented 6 years ago

another example 77938

xiuliren commented 6 years ago

fixed by 8b22950702512c4df613d28af80daa2758613c97

xiuliren commented 6 years ago

prof of results.

before optimization

after optimization