ape (version 3.0-5)

makeLabel: Label Management

Description

This is a generic function with methods for character vectors, trees of class "phylo", lists of trees of class "multiPhylo", and DNA sequences of class "DNAbin". All options for the class character may be used in the other methods.

Usage

makeLabel(x, ...)
## S3 method for class 'character':
makeLabel(x, len = 99, space = "_", make.unique = TRUE,
          illegal = "():;,[]", quote = FALSE, ...)
## S3 method for class 'phylo':
makeLabel(x, tips = TRUE, nodes = TRUE, ...)
## S3 method for class 'multiPhylo':
makeLabel(x, tips = TRUE, nodes = TRUE, ...)
## S3 method for class 'DNAbin':
makeLabel(x, ...)

Arguments

Value

An object of the appropriate class.

Details

The option make.unique does not work exactly in the same way then the function of the same name: numbers are suffixed to all labels that are identical (without separator). See the examples.

If there are 10--99 identical labels, the labels returned are "xxx01", "xxx02", etc, or "xxx001", "xxx002", etc, if they are 100--999, and so on. The number of digits added preserves the option `len'.

The default for `len' makes labels short enough to be read by PhyML. Clustal accepts labels up to 30 character long.

See Also

makeNodeLabel, make.unique, make.names, abbreviate, mixedFontLabel

Examples

Run this code
x <- rep("a", 3)
makeLabel(x)
make.unique(x) # <- from R's base
x <- rep("aaaaa", 2)
makeLabel(x, len = 3) # made unique and of length 3
makeLabel(x, len = 3, make.unique = FALSE)

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