napari-nuclephaser documentation

Welcome to the napari-nuclephaser documentation!

To learn how to install NuclePhaser, read installation instructions:

Installation instructions

• Installation instructions
  • Option 1 (simple): Using standalone napari app
  • Option 2 (recommended): Using Anaconda
  • Option 2 advanced: installation with GPU

To learn how NuclePhaser can be used for biological tasks, navigate to these sections:

Biological tasks guidelines

• Population growth curves
• Individual cells tracking

To learn more about the algorithms behind the project, navigate to general information sections:

General information

• Object detection overview
• Overview of sliced inference approach
• Confidence threshold calibration
• Test-time augmentations (TTA)

To learn more about widgets and their functions, navigate to the widget page you need:

Widgets

• Predict on single image
• Predict on 1-stack
• Predict on 2-stack
• Calibrate with known number
• Calibrate with DAPI
• Calibrate with points
• Convert points to labels
• Count points on images