phylotools (version 0.2.2)

get.phylip.name: get the names of sequences from a PHYLIP file

Description

get the names of sequences from a PHYLIP file.

Usage

get.phylip.name(infile, clean_name = FALSE)

Arguments

infile

character representing the name or path of the phylip file.

clean_name

logical, representing cleaning of the names will be performed.

Value

a character vector of the names of the sequences

Details

Punctuation characters and white space be replaced by "_". Definition of Punctuation characters can be found at regex.

See Also

read.phylip, regex

Examples

# NOT RUN {
  cat("6 22",
  "seq_1    --TTACAAATTGACTTATTATA",
  "seq_2    GATTACAAATTGACTTATTATA",
  "seq_3    GATTACAAATTGACTTATTATA",
  "seq_5    GATTACAAATTGACTTATTATA",
  "seq_8    GATTACAAATTGACTTATTATA",
  "seq_10   ---TACAAATTGAATTATTATA",
  file = "matk.phy", sep = "\n")
get.phylip.name("matk.phy")
unlink("matk.phy")
# }