Test datasets for Golgi Orientation plugin of Microscopy Image Browser

This deposition contains two example cases for the Golgi Orientation plugin of Microscopy Image Browser (MIB), a tool that quantifies the spatial orientation of the Golgi apparatus relative to the nucleus surface or the outer cell boundary. The datasets are downsampled version of the original datasets using in the reference publication and collected using serial block-face scanning electron microscopy. For each detected Golgi object the plugin computes a distance map from the selected reference structure and reports the standard deviation of the sampled distance values as an orientation score - a low standard deviation indicates a well-oriented Golgi concentrated at a uniform distance from the reference object, while a high value indicates a more dispersed arrangement. Cropped cells dataset - three sub-directories (BStem01, BStem02, BStem03), each containing one 3-D image (Amira Mesh format, isotropic 80 × 80 × 80 nm voxels) and one multi-material segmentation model encoding the cell outline (material 1), nucleus (material 2), and Golgi apparatus (material 3). Complete model dataset - one directory containing a single 3-D image (Amira Mesh format, 80 × 80 × 80 nm voxels) together with three separate model files (with upto 65535 materials each): cell outlines, Golgi objects, and nuclei. Labels are consistent across all three files so that matching index values identify the same cell. A step-by-step video tutorial demonstrating both analysis modes is available at: https://youtu.be/yJGyDAt-IK8 MIB and its plugins are freely available at https://mib.helsinki.fi