create_traitset: Takes an airr clone object and returns BEAST2 XML for a...
In dowser: B Cell Receptor Phylogenetics Toolkit

View source: R/TimeTreesFunctions.R

create_traitset

R Documentation

Takes an airr clone object and returns BEAST2 XML for a trait/traitSet from a column

Description

Takes an airr clone object and returns BEAST2 XML for a trait/traitSet from a column

Usage

create_traitset(
  clone,
  trait_name,
  column,
  id,
  trait_data_type = NULL,
  isSet = FALSE,
  include_germline_as_tip = FALSE
)

Arguments

`clone`	an `airrClone` object
`trait_name`	name of the trait
`column`	column in the clone data to use for the trait
`id`	unique identifer for this analysis
`trait_data_type`	optional data type for the trait
`isSet`	is this a traitSet (TRUE) or a trait (FALSE)?
`include_germline_as_tip`	include the germline as a tip

Value

String of XML of the trait or traitSet

dowser documentation built on Nov. 5, 2025, 6:36 p.m.

dowser index

Package overview README.md Building trees with paired heavy and light chain data Build Lineage Trees Build Time Trees Using TyCHE and BEAST 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 Build Time Trees Using TyCHE and BEAST 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 Using data from non-B cells

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