Doc page for Mastodon.

.gitignore

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 /Gemfile.lock
 /_site/
 __pycache__/
+.DS_Store
+/vendor/
+/.bundle
+
+

_pages/plugins/mastodon.md

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+---
+title: Mastodon
+description: Mastodon is a large-scale tracking and track-editing framework for large, multi-view images, such as the ones that are typically generated in the domain Development Biology or Stem-Cell Biology or Cell Biology.
+categories: [Segmentation,Tracking]
+artifact: org.mastodon.mamut:WindowManager
+---
+
+*Mastodon is a large-scale tracking and track-editing framework for large, multi-view images, such as the ones that are typically generated in the domain Development Biology or Stem-Cell Biology or Cell Biology.*
+
+{% include img name="Mastodon logo" src="/media/plugins/mastodon/Mastodon-logo_jy-01-512.png" width="250px" %}
+
+Why using Mastodon?
+
+Modern microscopy technologies such as light sheet microscopy allows live sample in toto 3D imaging with high spatial and temporal resolution. Such images will be 3D over time, possibly multi-channels and multi-view. Computational analysis of these images promises new insights in cellular, developmental and stem cells biology. However, a single image can amount to several terabytes, and in turn, the automated or semi-automated analysis of these large images can generate a vast amount of annotations. The challenges of big data are then met twice: first by dealing with a very large image, and second with generating large annotations from this image. They will make interacting and analyzing the data especially difficult.
+
+Mastodon is our effort to provide a tool that can harness these challenges.
+
+You can find its documentation, tutorials and technical informations [here](https://mastodon.readthedocs.io/en/latest/index.html).
+
+{% include gallery content=
+"
+/media/plugins/mastodon/A_Illustratrion.png | Tracking in _Tribolium castanum_ embryo.
+/media/plugins/mastodon/Mastodon_visibilities_01.png | Tracks visibility.
+/media/plugins/mastodon/Vlado_01.png | Tracking large movies 1.
+/media/plugins/mastodon/Vlado_04.png | Tracking large movies 2.
+/media/plugins/mastodon/Screenshot 2022-05-12 at 13.45.49.png | Lineage tracing 1.
+/media/plugins/mastodon/Mastodon_TracSchemeColoring_03.png | Lineage tracing 2.
+"
+%}
+
+{% include video 
+src="/media/plugins/mastodon/BDVCapture2-trimmed.mp4" 
+name="Exporting tracking data to movie."
+align="center" %}
+
+{% include video 
+src="/media/plugins/mastodon/BDVCapture3.mp4" 
+name="More Tribolium."
+align="center" %}
+
+{% include video 
+src="/media/plugins/mastodon/Mastodon-Grapher-withContext.mov"
+name="Explore numerical results."
+align="center" %}
+