Generic 3D segmentation and classification in biological development

Segmentation and classification for 3D datasets.

Authors

  • Jaza Gul-Mohammed (jgulmoha at snv dot jussieu dot fr)
  • Ignacio Arganda-Carreras (Ignacio dot Arganda at versailles dot inra dot fr)
  • Philippe Andrey (Philippe dot Andrey at versailles dot inra dot fr)
  • Vincent Galy (vincent dot galy at snv dot jussieu dot fr)
  • Thomas Boudier (thomas dot boudier at snv dot jussieu dot fr) corresponding author.

Description

Generic classification-based segmentation. A manual is available here. A tutorial (for a older version) is available here .

Download

The plugin is available here. External required libraries are :

  • 3D Viewer, the version used by the plugin is here.
  • ImageScience library, please download it from here.
  • WEKA, the version used by the plugin is available here.
  • 3D Suite, the version used by the plugin is here.

Citation

J. GulMohammed, I. Arganda-Carreras, P. Andrey, V. Galy, T. Boudier. A Generic method for detection and classification of nuclei in 3D images of early embryos. (2014) BMC Bioinformatics 15:9. doi:10.1186/1471-2105-15-9. http://www.biomedcentral.com/1471-2105/15/9

License

G.P.L, sources plugin are available on request.

plugin/3d/rules-based_segmentation_and_tracking_4d_of_c._elegans_early_embryogenesis/start.txt · Last modified: 2014/05/05 06:09 by tboudier
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