RchyOptimyx

RchyOptimyx constructs hierarchical cell gating strategies to optimize external variables from high-dimensional single-cell assays such as flow cytometry, mass cytometry, and single-cell RT-qPCR.

Key Features:

• Enhanced Speed: The latest version is 14 times faster than previous iterations, reducing computation time for high-throughput datasets.
• Multi-Level Biomarker Expression: Supports analysis of multiple levels of biomarker expression across up to 96 markers for detailed characterization of cellular heterogeneity.
• Integration with BioConductor: Implemented within the BioConductor ecosystem to leverage existing statistical packages.
• High-dimensional Single-cell Assay Support: Applies to flow cytometry, mass cytometry, and single-cell RT-qPCR datasets for complex cellular systems.

Scientific Applications:

• Cell Hierarchy Construction: Constructs hierarchical organizations of cells to represent population relationships within single-cell datasets.
• Optimization of External-variable Associations: Identifies gating strategies that maximize associations with external variables such as clinical outcomes or cytokine responses.
• Immunology and Clinical Studies: Supports analysis of cellular responses and biomarker expression in immunological research and clinical investigations.

Methodology:

Constructs a hierarchical organization of cells from flow cytometry data and searches for gating strategies that maximize a specified external variable of interest.