TipDatingBeast (version 0.1-6)

TaxaOut: generates input files for leave-one-out analyses in BEAST

Description

This function produces input files to perform leave-one-out analyses using BEAST version 1 software. As many files as taxa present in the input file are produced; each one leaving each consecutive taxon out for analysis.

Usage

TaxaOut(name)

Arguments

name

Name of the input file should be a .xml file generated using BEAUTi. Place the name between quotes ("example"). Does not include .xml.

Value

• The function returns as many files as taxa are present in the input file; each one leaving each consecutive taxon out for analysis.

Details

The function works only with a .xml file generated with BEAUti version 1.

References

Rieux A & Khatchikian, C. Unpublished. Drummond AJ, Suchard MA, Xie D & Rambaut A (2012) Bayesian phylogenetics with BEAUti and the BEAST 1.7 Molecular Biology And Evolution 29: 1969-1973.

Examples

# using the example files "Flu.xml" found in example folder.
	TaxaOut("Flu")
	# produce 21 input files, each one without the corresponding taxon