ggcyto

ggcyto visualizes flow cytometry data in R using ggplot2 to render plots of raw and gated datasets and to display gates and population statistics for flowSet, ncdfFlowSet, and GatingSet objects within the Bioconductor ecosystem.

Key Features:

• Integration with ggplot2: Implements a dedicated fority method to extend ggplot2 plotting to flow cytometry data types including flowSet, ncdfFlowSet, and GatingSet.
• Handling Raw and Gated Data: Supports visualization of both raw and gated flow cytometry datasets, enabling representation of gating results.
• Customized Plot Layers: Provides specialized layers to add gates and population statistics directly onto ggplot2-based plots.
• Interoperability with Bioconductor Packages: Operates within the Bioconductor project to interoperate with Bioconductor packages and data structures for flow cytometry analysis.

Scientific Applications:

• Immunology: Enables visualization and interpretation of immune cell populations and gating strategies in immunology studies using flow cytometry data.
• Cell Biology: Facilitates analysis of cell population characteristics and marker expression in cell biology experiments analyzed by flow cytometry.
• Cancer Research: Supports visualization of tumor and immune cell phenotypes and comparative gating analyses in cancer research using flow cytometry.

Methodology:

Uses R to implement a fority method that extends ggplot2 functionality to flow cytometry data, adding specialized layers and methods to plot gates and population statistics.