ZELDA

ZELDA performs 3D segmentation and quantitative analysis of microscopy image datasets to enable measurement of fluorescence intensity, polarization, cell counts, and vesicle distribution.

Key Features:

• Interactive 3D segmentation: Performs comprehensive 3D image segmentation for microscopy datasets to enable spatially resolved object delineation.
• Integrated analysis workflow: Supports cell segmentation, vesicle counting, parent-child relationship assignment between objects, signal quantification, and results presentation within a unified workflow.
• Python library integration: Leverages scikit-image for segmentation, matplotlib for data visualization, and napari for multi-dimensional and 3D image rendering.
• Quantitative readouts: Produces measurements including fluorescence intensity, polarization metrics, cell counts, and vesicle distribution statistics.

Scientific Applications:

• Fluorescence quantification: Enables precise measurement of fluorescence intensity in 3D microscopy datasets.
• Polarization analysis: Provides extraction of polarization-related metrics from imaging data.
• Cell counting and spatial relationships: Allows quantification of cell number and assignment of parent-child relationships between cellular structures.
• Vesicle distribution analysis: Measures vesicle counts and their spatial distribution within cells or volumes.
• Spatial interaction analysis: Facilitates study of spatial distribution and interactions of cellular components not fully captured by 2D analyses.

Methodology:

Employs scikit-image for image segmentation, matplotlib for data visualization, and napari for multi-dimensional/3D rendering and exploration.