seqinr (version 1.0-1)

read.fasta: Read file in fasta format

Description

Read a file containing sequences in fasta format.

Usage

read.fasta(File = system.file("sequences/ct.fasta", package = "seqinr"),seqtype="DNA")

Arguments

File
The name of the file which the sequences in fasta format are to be read from. If it does not contain an absolute path, the file name is relative to the current working directory, getwd()
seqtype
the nature of the sequence: DNA or AA

Value

  • return a list of vector of chars. Each element is a sequence object of the class SeqFastadna or SeqFastaAA.

Details

By default read.fasta

References

� To have an overview of the seqinR's functionnality, please consult this vignette: Charif, D., Lobry, J.R. (2005) SeqinR: a contributed package to the R project for statistical computing devoted to biological sequences retrieval and analysis. Springer Verlag, Biological and Medical Physics/Biomedical Series, in preparation.

Examples

Run this code
s = read.fasta(File=system.file("sequences/malM.fasta",package = "seqinr"))
ss = read.fasta(File=system.file("sequences/seqAA.fasta",package = "seqinr"),seqtype="AA")

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