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Extract Top Nodes from Node Overlaps in a FlowObject

Source: R/NodeOverlaps.R
ExtractTopNodes.Rd

This function analyzes node overlaps stored within a `FlowObject` and extracts top nodes based on clustering and composite scores derived from entropy, enrichment, and average proportion. It performs hierarchical clustering on the dendrogram of node overlaps, selects the best node from each cluster based on a composite score, and updates the gating tree with these nodes.

Usage

ExtractTopNodes(x, cluster_num = 6)

Arguments

x

A `FlowObject` containing the gating tree and node overlaps data.

cluster_num

An integer specifying the number of clusters to cut the dendrogram into. Defaults to 6.

Value

The modified `FlowObject` with updated `ExtractPrunedGatingTree` and `ExtractPrunedGatingTreePaths` slots indicating the pruned gating tree and the paths of selected top nodes.

See also

Other Unsupervised GatingTree Analysis: AnalyzeNodeOverlaps()

Examples

if (FALSE) { # \dontrun{
x <- ExtractTopNodes(x, cluster_num = 6)
} # }