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