This functions parse DNA sequences in FASTA, PHILIP, and NEXUS formatted files.
Usage
read.fas(x, text)
read.nex(x)
read.phy(x)
Arguments
x
a character string, giving the file name.
text
a character string in FASTA format.
Value
An object of class DNAbin and of mode matrix if all sequences are of same length or matrix if they are not.
Author(s)
Christoph Heibl
References
Maddison, D.R., D.L. Swofford, and W.P. Maddison. 1997. NEXUS: an extensible file format for systematic information. Syst. Biol.46: 590-621.
See Also
mafft and prank for sequence alignment, gblocks and aliscore for quality check and cleaning of sequence alignments, cbind.DNAbin for concatenation of sequence alignments.