Examples

• Introducing the Girder API
• Procedure for managing a typical annotation project
• Tips for scaling annotation rendering
• Local backup and SQL querying of annotation data
• Creating gallery images for annotation review
• Local processing of whole-slide images using large_image
• Color Deconvolution
• Color normalization
• “Smart” color augmentation
• Nuclei Segmentation
• Positive pixel count and parallel processing with Dask
• Converting annotations to semantic segmentation mask images
• Converting annotations to object segmentation mask images
• Converting masks back to annotations
• Merging annotations from tiled arrays
• Merging polygons (general purpose)
• Tissue Detection
• Color thresholding semantic segmentation
• Finding cellular regions with superpixel analysis
• Analyzing remotely hosted images with the girder client