Mastodon Deep-Lineage 0.0.1

Contents of Mastodon Deep-Lineage 0.0.1

Numerical Features added to Mastodon

• Spot Features

  • Spot Ellipsoid Axes and Volume
  • Spot Ellipsoid Aspect Ratios
  • Spot Branch ID

• Branch-spot Features

  • Branch N Leaves
  • Branch N Successors
  • Branch Sinuosity

Lineage Tree Classification

• Grouping similar lineage trees together.
  • The lineage classification dialog
  • The resulting dendrogram
    
  • The resulting tag set used for coloring the track scheme.
    
  • More documentation:

Label image exporter

• Saving a label image to a file using the existing ellipsoids in Mastodon.
• The dialog:
• The timelapse with the ellipsoids in BigDataViewer:
• The exported tif imported into Napari 3D view:

Contributors

• @stefanhahmann
• @maarzt
• @tinevez

What's Changed

• Number of total leaves of a BranchSpot by @stefanhahmann in #10
• Add new Feature BranchSinuosity by @stefanhahmann in #18
• Add logback as logging framework by @stefanhahmann in #19
• Add SpotEllipsoidFeature by @stefanhahmann in #14
• Add SpotEllipsoidAspectRatioFeature by @stefanhahmann in #23
• Add Zhang Tree Edit Distance for labeled unordered trees by @stefanhahmann in #26
• Add Branch spot id feature by @stefanhahmann in #39
• Extend the ZhangUnorderedTreeEditDistance to Return the Optimal Node Mapping by @maarzt in #33
• Classification of lineage trees by @stefanhahmann in #32
• Add exporting ellipsoids to file by @stefanhahmann in #45
• Colorize dendrogram by @stefanhahmann in #48
• Add Readme.md by @stefanhahmann in #57

New Contributors

• @maarzt made their first contribution in #31

Full Changelog: https://github.com/mastodon-sc/mastodon-deep-lineage/commits/mastodon-deep-lineage-0.0.1