| SeqFrag {seqinr} | R Documentation |
as.SeqFrag is called by all methods of getFrag, but not directly by the users. It creates an object sequence of class SeqFrag.
as.SeqFrag(object, begin, end, name) is.SeqFrag(object)
object |
an object sequence of class seqFastadna, seqFastaAA, seqAcnucWeb or seqFrag |
begin |
the first base of the fragment to get |
end |
the last base of the fragment to get |
name |
the name of the sequence |
as.SeqFrag returns a biological sequence with the following attributes:
seqMother |
the name of the sequence from which the sequence comes |
begin |
the position of the first base of the fragment on the mother sequence |
end |
the position of the last base of the fragment on the mother sequence |
class |
SeqFrag which is the classfor sub-sequence |
is.SeqFrag returns TRUE if the object is of class Seqfrag.
D. Charif, J.R. Lobry
citation("seqinr")
getFrag, getLength, getName,
getSequence, getTrans
s <- read.fasta(file = system.file("sequences/malM.fasta", package = "seqinr"))
getFrag(s[[1]], 1, 10)