readFasta: Read fasta files.
In sequences: Generic and Biological Sequences

Description Usage Arguments Details Value Author(s) See Also Examples

View source: R/functions.R

Reads sequences data in fasta and create DnaSeq and RnaSeq instances.

1	readFasta(infile)

infile

the name of the fasta file which the data are to be read from.

This funtion reads DNA and RNA fasta files and generates valid "DnaSeq" and "RnaSeq" instances.

an instance of DnaSeq or RnaSeq.

Laurent Gatto lg390@cam.ac.uk

GenericSeq, DnaSeq and RnaSeq.

f <- dir(system.file("extdata",package="sequences"),pattern="fasta",full.names=TRUE)
f
aa <- readFasta(f[1])
aa

Loading required package: Rcpp
This is package 'sequences'

[1] "/usr/local/lib/R/site-library/sequences/extdata/aDnaSeq.fasta"    
[2] "/usr/local/lib/R/site-library/sequences/extdata/moreDnaSeqs.fasta"
Object of class DnaSeq 
 Id: example dna sequence 
 Length: 132 
 Alphabet: A C G T 
 Sequence: AGCATACGACGACTACGACACTACGACATCAGACACTACAGACTACTACGACTACAGACATCAGACACTACATATTTACATCATCAGAGATTATATTAACATCAGACATCGACACATCATCATCAGCATCAT