frenchFISH

frenchFISH quantifies DNA copy-number from FISH images of tissue sections using a nuclear volume correction method coupled with Poisson models.

Key Features:

• Nuclear Volume Correction: The method corrects for nuclear volume to improve accuracy in spot counting from FISH images.
• Poisson Model for Manual Spot Counting: A Poisson model enables improved manual spot counting without the need for control probes.
• Homogenous Poisson Point Process Model: A homogenous Poisson Point Process model supports automated spot counting.

Scientific Applications:

• DNA Copy-number Quantification: Quantification of DNA copy-number from FISH images of tissue sections.
• Manual Spot Counting: Improved manual counting of spots in FISH images without requiring control probes.
• Automated Spot Counting: Automated counting of spots in FISH images using a Poisson Point Process approach.

Methodology:

The method couples a nuclear volume correction method with two types of Poisson models: a Poisson model for manual spot counting without control probes, or a homogenous Poisson Point Process model for automated spot counting.