Welcome to GIANI

This page hosts the documentation for GIANI 3.4.9.

Contents:

• Overview
  • What is GIANI?
  • Installing GIANI
  • General
  • Data Dimensionality
  • Converting Data
  • Design Philosophy
• Getting Started
  • Selecting Input Files
  • Selecting a Preview Data Set
• Detecting Nuclei
  • Estimating the Centres of Nuclei
  • Filtering Prior to Nuclear Segmentation
  • Background Subtraction Prior to Nuclear Segmentation
  • Segmenting Nuclei
• Segmenting Cells
  • Filtering Prior to Cell Segmentation
  • Complete Segmentation of Cells
• Making Measurements
  • Specifying Channels to Measure
  • Localising Spots
• Running the Complete Analysis
• Test Data
• Running GIANI Headlessly
  • Overview
  • Parameters