Thank you for much for considering contributing to the DeepD3 ecosystem! We are very happy to receive your contribution. If you have any questions, please let us know.
We categorized contributions in the following way:
- Microscopy stack - any raw or processed microscopy data that shows dendrites and/or dendritic spines
- Annotation file - any identified dendritic spines using e.g. point ROIs in ImageJ for any DeepD3 dataset, e.g. the benchmark dataset. Could also be a traced swc file for a given stack
- Segmentation file - any pixel-wise annotation of dendritic spines or dendrites (e.g. as binary tif stack or pipra mask file)
- Pre-trained model - any deep neural network for dendritic spines and dendrite segmentation. We prefer TensorFlow models that are compatible with the DeepD3 GUI. For transparency and openess reasons, we also accept any arbitrary pre-trained networks, but please provide an elaborate description how to use your pre-trained model.
