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 :
-
ImageScience library, please download it from
here.
WEKA, the version used by the plugin is available
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.