Available Resources
  • ODNN (https://github.com/BooneAndrewsLab/ODNN.git)
    - Scripts for data pre-processing, running supervised two hidden-layer fully connected neural network for single cell classification, and penetrance calculation
    - Used in "Exploring endocytic compartment morphology with systematic genetics and single cell image analysis" by Mattiazzi Usaj et al.
  • One-Class SVM (https://github.com/BooneAndrewsLab/ocSVM.git)
    - Outlier Detection with One-Class SVM
    - Used in "Exploring endocytic compartment morphology with systematic genetics and single cell image analysis" by Mattiazzi Usaj et al.
  • Single Cell Labeling Tool (https://github.com/BooneAndrewsLab/singlecelltool)
    - Custom-made graphical user interface (GUI) application that allows users to view and label single cell images in a grid layout. Users can save a phenotype for each cell and then export the data.
    - Used in "Exploring endocytic compartment morphology with systematic genetics and single cell image analysis" by Mattiazzi Usaj et al.
  • DeepLoc (https://github.com/okraus/DeepLoc)
    - Contains the code, pretrained models, and datasets for the paper: "Automated analysis of high-content microscopy data with deep learning" Kraus, O.Z., Grys, B.T., Ba, J., Chong, Y., Frey, B.J., Boone, C., Andrews, B.J. Molecular Systems Biology 13.4 (2017): 924. http://msb.embopress.org/content/13/4/924