R/allClasses.R
, R/show-methods.R
, R/subset-methods.R
PrimerPairsSet-class.Rd
The PrimerPairsSet class is a container for storing primer pairs.
This means exactly two DNAStringSet
objects of the same length specifying primer-pairs. Primer
sequences can be provided as character strings and will be
converted to DNAStringSet
by the
constructor function of the same name. primerF and primerR have to
be of the same length to specify primer pairs. Warnings are
given if primer sequences are of unusual length (<16 or >26 bases).
PrimerPairsSet(primerF = character(), primerR = character()) # S4 method for PrimerPairsSet length(x) # S4 method for PrimerPairsSet names(x) # S4 method for PrimerPairsSet show(object) # S4 method for PrimerPairsSet,index,missing,ANY [(x, i, j, ..., drop = NA)
primerF | Character vector or DNAStringSet. Can be named or unnamed. |
---|---|
primerR | Character vector or DNAStringSet of the same length. Can be named or unnamed. |
x | A |
object | A |
i | integer, or logical value which primer pairs to select or character string giving the name of the primer pair |
j | not used |
... | not used |
drop | not used |
PrimerPairsSet-class
primerF
DNAStringSet. Can be named or unnamed.
primerR
DNAStringSet of the same length. Can be named or unnamed.
names
Character string. Either constructed as a concatenation of names of forward and reverse primers or of their sequences (if primer sequences are unnamed).
.mapF
(automatically generated) maps potentially duplicate entries in FW primers to unique entries.
.mapR
(auto-generated) maps potentially duplicate entries in FW primers to unique entries.
.uniqueF
(auto-generated) unique forward primers as character strings.
.uniqueR
(auto-generated) unique reverse primers as character strings.
Emanuel Heitlinger