cytoviewer

cytoviewer visualizes and enables interactive exploration of highly multiplexed multi-channel imaging data and segmentation masks at single-cell resolution within the R/Bioconductor ecosystem for spatial single-cell analyses.

Key Features:

• Interactive Visualization: Enables interactive inspection and spatial exploration of multi-channel image datasets and segmentation masks for image quality control.
• Flexible Image Composites: Supports generation of customizable composite images from multiple channels.
• Side-by-Side Channel Visualization: Provides side-by-side display of individual channels to facilitate direct comparison of components within multiplexed datasets.
• Spatial Single-Cell Data Visualization: Renders segmentation-mask-based single-cell visualizations for assessment of cell phenotypes and spatial context.
• Integration with Bioconductor Framework: Operates on standard Bioconductor data classes to integrate image and segmentation data within existing R-based workflows.

Scientific Applications:

• Spatial biology and single-cell analysis: Visualization and inspection of cellular and molecular spatial patterns at single-cell resolution.
• Imaging mass cytometry in cancer: Applied to imaging mass cytometry datasets from cancer samples to visualize complex multi-channel imaging data and segmentation results.

Methodology:

Operates on Bioconductor standard data classes to manipulate multi-channel images and segmentation masks, generate composite and side-by-side channel views, and render segmentation-based single-cell visualizations for image quality control and inspection of cell phenotyping.