collapseNodes: Collapse internal nodes with the same predicted sequence
In dowser: B Cell Receptor Phylogenetics Toolkit

View source: R/TreeFunctions.R

collapseNodes

R Documentation

Collapse internal nodes with the same predicted sequence

Description

collapseNodes Node collapsing function.

Usage

collapseNodes(trees, tips = FALSE, check = TRUE)

Arguments

`trees`	a tibble of `airrClone` objects, the output of getTrees
`tips`	collapse tips to internal nodes? (experimental)
`check`	check that collapsed nodes are consistent with original tree

Details

Use plotTrees(trees)[[1]] + geom_label(aes(label=node)) + geom_tippoint() to show node labels, and getSeq to return internal node sequences

Value

A tibble with phylo objects that have had internal nodes collapsed.

See Also

getTrees

dowser documentation built on May 29, 2024, 3:06 a.m.

dowser index

Package overview README.md Building trees with paired heavy and light chain data Build Lineage Trees Discrete Trait Analysis Measurable evolution Plotting Lineage Trees Quickstart Reconstruct Clonal Germlines Reconstruct Intermediate Sequences Build B cell lineage trees Building trees with paired heavy and light chain data Detect ongoing B cell evolution Discrete trait analysis Dowser: Simple lineage tree construction Plot B cell lineage trees Reconstruct clonal germline sequences Reconstruct intermediate sequences

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