CellOrganizer v2.4 ================== Highlights ---------- * Included new diffeomorphic models of Hela cells independent cell nucleus * Included new diffeomorphic model of H1299 cells * Enhanced reporting of time series and cell and nuclear shape space relationships * Demos to generate figures 2, 6, 7, and Video S1 from Johnson, G. et al. (2015) Joint Modeling of Cell and Nuclear Shape Variation. Molecular Biology of the Cell. Enhancements ------------ * Optimized training demos demo3D11 and demo3D12 for faster training of models * Include 2D differeomorphic code, which allows training and synthesize 2D images for diffeomorphic code with 2D flag but not the original 3D flag. And format of the synthesized images is set the same as other 2D models. * Unified the protein model name of 2D and 3D so that it is more convenient to do possible 2D and 3D model interaction. * Add the check of training input image directories to see if they are empty. Bug Fixes --------- * Fixed bug in image final resolution setting in model2img, check if the size of protein image has been set, if not, then set the protein image size. * Fixed the bug in 3D nuclear training, in train_nuc_shape_model.m, some processes was performed twice which is not right. * In demo3DDiffeoSynth_grid.m, change the dimension to get the maximum positions * In demo3D09.m, update Random Stream setting method for current supported Matlab versions.