letter_strings_to_tipranges_df: Convert ranges in the form of letters (A, AB, BFG, etc.) to a...
In BioGeoBEARS: BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts

Description Usage Arguments Value Note Author(s) References See Also Examples

This function converts ranges in the form of concatenated letters (A, AB, BFG, etc.) to binary state number codes. Via apply, this is done to each member of the entire input vector of strings. It outputs tipranges object.

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  letter_strings_to_tipranges_df(letter_strings,
    letter_codes_in_desired_order = "alphabet",
    tipnames_in_order = NULL)

`letter_strings`	A list of ranges in concatenated letter form ("A", "AB", "BFG", etc.)
`letter_codes_in_desired_order`	The letter codes in the desired order. The default keyword, "alphabet", uses the standard 26 capital letters; the output binary codes will thus have 26 positions. If the user inputs fewer letters here, or puts them in another order, those will be used.
`tipnames_in_order`	If given, the input tipnames will be applied as rownames in the tipranges object. Default is `NULL`, which results in numbering the rows.

tipranges An object of class tipranges.

Go BEARS!

Nicholas J. Matzke matzke@berkeley.edu

http://phylo.wikidot.com/matzke-2013-international-biogeography-society-poster

Matzke_2012_IBS

letter_string_to_binary, binary_range_to_letter_code_list, binary_ranges_to_letter_codes, getranges_from_LagrangePHYLIP

testval=1
letter_strings = c("A", "B", "C", "AB", "AC", "BC", "ABC")
letter_strings_to_tipranges_df(letter_strings)

letter_strings = c("A", "B", "C", "AB", "AC", "BC", "ABC")
letter_strings_to_tipranges_df(letter_strings,
tipnames_in_order=paste("tip", seq(1,7), sep=""))