Estimating full-field displacement in biological images using deep learning (dataset)

This dataset supports the publication titled “Estimating full-field displacement in biological images using deep learning” and the associated code available at: https://github.com/philipwijesinghe/displacement-estimation-for-microscopy

Data:
We provide a minimal example dataset for inference and training, demonstrating the typical data layout, configurations files and outputs (minimal_example_data.zip). Further, we provide the cardiomyocytes videos as image sequences (data-cardiomyocytes.zip). The Drosophila videos may be accessed from the original publication.

Software:
We provide a portable snapshop of Fiji (Fiji.app.zip) that includes deepImageJ and our models. We also provide the standalone compiled binaries for inference (deformnet_inference_cli.zip). Source code is available at https://github.com/philipwijesinghe/displacement-estimation-for-microscopy

Models:
We provide the individual DEFORM-Net model in pytorch and torchscript format (model-deformnet-pytorch.zip and model-deformnet-torchscript.zip). All models are further provided in a combined zipped format for pytorch and torchscript (models-pytorch.zip and models-torchscript.zip)