CellSeg3D: additional data & model weights

CellSeg3D additional benchmark data Results files Found in the `RESULTS_DATA` folder, the results of the benchmarking of the CellSeg3D pipeline on the test data are provided. The results are meant to be directly used by the ["Showing quantitative and qualitative benchmarking performance on additional datasets"](https://c-achard.github.io/cellseg3d-figures/Figure3/self-supervised-extra.html) Simply point the notebook towards the `RESULTS_DATA` folder to use the results. data_path = Path("path/to/RESULTS_DATA") Additional model weights from re-training cellpose and StarDist models on the training data Found in the `TRAINING` folder, the weights of the models used in the paper are provided. The training scripts are also provided for transparency. Additional data for the CellSeg3D paper by Achard et al. Note : since Cellpose pre-trained performance was consistently higher than a retrained version, results were reported using the pre-trained model. See https://elifesciences.org/reviewed-preprints/99848v1 for more information. Structure RESULTS_DATA# do not move files, simply set the notebook path to use this folder TRAINING # all training scripts and model weights │ └───cellpose │ │ cellpose_MoSk │ │ | └───results # contains the weights of the model │ │ | └───MouseSkull.py # script to train the model │ │ cellpose_PlISH │ │ | └───results # contains the weights of the model │ │ | └───PlISH_CP.py # script to train the model │ │ cellpose_PlNuc │ │ | └───results # contains the weights of the model │ │ | └───PlNuc_cellpose.py # script to train the model └───stardist │ MouseSKull │ | └───models # contains the weights of the model │ | └───MouseSkull_SD.py # script to train the model │ PlISH │ | └───models # contains the weights of the model │ | └───PlatyISH_SD.py # script to train the model │ PlNuc │ | └───models # contains the weights of the model │ | └───PlatyNuc_SD.py # script to train the model