Guides

Detailed guides for getting the most out of Find Nuclei Viewer.

Core Workflows

• Local Files: Drag and drop OME-ZARR data from your disk
• Remote URLs: Stream data from public OME-ZARR servers
• Data Server: Host your own on-site ZARR server with Docker
• Authenticated Sources: Open private ZARR data via Bearer tokens or AWS SigV4 (STS-scoped S3 access)
• HCS Plates: Navigate high-content screening plate data
• Sharing Views: Share your exact view with a URL
• Embedding in Publications: Add an interactive viewer to any web page with two lines of HTML

Working with Your Data

• Channels: Pick colors, adjust contrast, auto-contrast, gamma, RGB/BW/INV display modes
• Labels: Load segmentation masks, control display, add metadata, organise by source or key-value
• Annotations: Draw, select, bulk-edit, and classify regions of interest
• Annotation Templates: Create reusable template presets for color + class + keyboard shortcut
• Analytics & Phenotyping: Load CSVs, color by column, filter, and build named cell populations