dat2phylip.Rd
Convert and save a data frame to sequential PHYLIP file.
dat2phylip(dat, outfile = "out.phy")
dat | the data frame returned by |
---|---|
outfile | character string represents the phylip file to be generated. |
The output will be in sequential PHYLIP format.
This is a subroutine, there is no return value.
http://www.genomatix.de/online_help/help/sequence_formats.html
Jinlong Zhang <jinlongzhang01@gmail.com>
The names of the sequences should not contain white space or Punctuation characters. See regex
for more details.
cat( ">seq_2", "GTCTTATAAGAAAGAATAAGAAAG--AAATACAAA-------AAAAAAGA", ">seq_3", "GTCTTATAAGAAAGAAATAGAAAAGTAAAAAAAAA-------AAAAAAAG", ">seq_5", "GACATAAGACATAAAATAGAATACTCAATCAGAAACCAACCCATAAAAAC", ">seq_8", "ATTCCAAAATAAAATACAAAAAGAAAAAACTAGAAAGTTTTTTTTCTTTG", ">seq_9", "ATTCTTTGTTCTTTTTTTTCTTTAATCTTTAAATAAACCTTTTTTTTTTA", file = "trn1.fasta", sep = "\n") res <- read.fasta("trn1.fasta") dat2phylip(res) unlink("trn1.fasta") unlink("out.phy")