getName: Generic function to get the names of sequences

In seqinr: Biological Sequences Retrieval and Analysis

Generic function to get the names of sequences

Description

GetName returns the sequence names.

Usage

getName(object, ...)

Arguments

object	an object of the class SeqAcnucWeb or SeqFastadna, or SeqFastaAA or SeqFrag or a list of these objects
...	further arguments passed to or from other methods

Value

an object of class character containing the names of the sequences

Author(s)

D. Charif, J.R. Lobry, L. Palmeira

References

citation("seqinr")

See Also

SeqAcnucWeb, SeqFastadna, SeqFastaAA, SeqFrag

Examples

#
# List all available methods for getName generic function:
#
   methods(getName)
#
# Example with seven DNA sequences from a FASTA file:
#
  ff <- system.file("sequences/someORF.fsa", package = "seqinr")
  fs <- read.fasta(file = ff)
  stopifnot(all(getName(fs) == c("YAL001C", "YAL002W", "YAL003W",
    "YAL005C", "YAL007C", "YAL008W", "YAL009W")))
#
# Example with 49 sequences from an ACNUC server:
#
  ## Not run: 
  # Need internet connection
  choosebank("emblTP")
  fc <- query("fc", "sp=felis catus et t=cds et o=mitochondrion")
  getName(fc)
  closebank()  

## End(Not run)

seqinr documentation built on May 29, 2024, 6:36 a.m.