Extract and Finalize the Gating Tree Object

This function performs a tree extraction by specifying node paths. The resulting tree will be stored in the ExtractedGatingTreeObject slot of the FlowObject.

Usage

ExtractGatingTree(x, node_paths)

Arguments

x

A FlowObject that has been previously processed with GatingTreeToDF and contains gating information in the Gating slot, including GatingTreeDF and PrunedGatingTreeObject.

node_paths

A character vector of node paths to be used in the extraction process.

Value

The updated FlowObject with a new slot Gating$ExtractedGatingTreeObject containing the final, pruned gating tree.

Details

Node paths should use the format in GatingTreeDF's markers_up_to_max slot.

See also

Other GatingTree: GatingTreeToDF(), PlotDeltaEnrichment(), PlotDeltaEnrichmentPrunedTree(), PruneGatingTree(), createGatingTreeObject(), findNodeByPath(), getNode()

Examples

if (FALSE) { # \dontrun{
# Assume 'x' is a FlowObject that has been processed with GatingTreeToDF and PruneGatingTree:
x <- ExtractGatingTree(x, node_paths = c("CD4.logdata.pos_CD8.logdata.neg",
"CD4.logdata.pos_CD19.logdata.pos"))
} # }