organoid_tracker.imaging.ctc_io module

IO functions for the Cell Tracking Challenge data format, following the specification at https://public.celltrackingchallenge.net/documents/Naming%20and%20file%20content%20conventions.pdf

organoid_tracker.imaging.ctc_io.load_data_file(file_name: str, min_time_point: int = 0, max_time_point: int = 5000, *, experiment: Optional[Experiment] = None) → Experiment

organoid_tracker.imaging.ctc_io.save_data_files(experiment: Experiment, folder: str, mask_size_um=7)

Saves all cell tracks in the data format of the Cell Tracking Challenge. Requires the presence of links and images. Also requires an image size to be known, as well as the file name ending with .txt (case insensitive). Throws ValueError if any of these conditions are violated.