Multi-Environment Model Estimation (MEME) Software
This software is intended for segmentation and skeletonizing of C. elegans across various environments. Details may be found in our article: R. Sznitman, M. Gupta, G. D. Hager, P. E. Arratia, and J. Sznitman. Multi-environment model estimation for motility analysis of Caenorhabditis elegans, PLOS One 5(7): e11631 (2010).
The software (version 1.0) and tutorial are now available for download (raw Matlab source).
Caenorhabditis elegant segmentation using texture-based models for motility phenotyping for segmentation C. elegans in challenging environments.
A. Greenblum*, R. Sznitman*, P. Fua, P. E. Arratia and J. Sznitman. Caenorhabditis elegant segmentation using texture-based models for motility phenotyping. IEEE Transaction onBiomedical Engineering, 2014.
The software and tutorial are now available for download.
C. elegans Image Sequence Dataset
Dataset of C. elegans image sequences in different environments. Hand segmentation of the nematodes and results of different segmentation algorithms are provided.
R. Sznitman, M. Gupta, G.D. Hager, P.E. Arratia and J. Sznitman. Multi-environment model estimation for motility analysis of Caernorhabditis elegans. In PloS ONE 5(7): e11631, 2010.
The dataset can be downloaded here (400 MB).