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Minor inconsistency in thresholding of pharynxes #43

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ljschumacher opened this issue Mar 26, 2018 · 0 comments
Open

Minor inconsistency in thresholding of pharynxes #43

ljschumacher opened this issue Mar 26, 2018 · 0 comments

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@ljschumacher
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Creation of trajectories uses an adaptive otsu threshold
https://github.com/ver228/tierpsy-tracker/blob/master/tierpsy/analysis/traj_create/getBlobTrajectories.py#L126-L132

Pharynx skeletonisation uses a blur followed by a global otsu+binary threshold
https://github.com/ver228/tierpsy-tracker/blob/development/tierpsy/analysis/ske_pharynx/orient_pharynx.py#L29-L36

These may occasionally give inconsistent results, such as blobs without features, but with skeletons. Ideally these would be made consistent. The latter method likely has faster performance, and if results are satisfactory could be implemented for the former blob tracking.

@ver228 ver228 closed this as completed Apr 25, 2018
@ver228 ver228 reopened this Apr 25, 2018
luigiferiani pushed a commit to luigiferiani/tierpsy-tracker that referenced this issue Aug 25, 2020
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