Digital image basics Thresholding Morphological filters Connected component labeling Object shape measurements Spatial calibration N-dimensional images Data types Image data formats Workflow: Quantitative image inspection and presentation Volume slicing Big image data formats Projections Volume rendering Segmentation Workflow: Nuclei segmentation and shape measurement Fluorescence microscopy image formation Object intensity measurements Global background correction Neighborhood filters Median filter Workflow: 2D noisy object segmentation and filtering Local background correction Object filtering Distance transform Watershed Workflow: Nuclei and cells segmentation Skeletonization Draft: Similarity transformations Scripting: Running a script Scripting: Coding with LLMs Scripting: Recording a script Scripting: Variables Scripting: Strings and paths Scripting: Output saving Scripting: Batch processing Scripting: Handling input parameters Draft: Commenting Draft: Setting up a scripting environment Draft: Functions Draft: Loops Correlative image rendering Draft: Deep learning instance segmentation Draft: Manual segmentation Draft: Segment Golgi objects per cell
