sangerseqR (version 1.8.2)

sangerseq-class: Sangerseq Class Objects

Description

Sangerseq Class Objects contain data necessary for using sangerseq package functions (e.g. chromatogram, makeBaseCalls). The exact content will depend on the source of the data (for example, scf files do not have secondary Basecalls).

Usage

sangerseq(obj)
## S3 method for class 'abif':
sangerseq(obj)
## S3 method for class 'scf':
sangerseq(obj)

Arguments

obj

Can be either an abif or scf object.

Accessor methods

primarySeqID, primarySeq, secondarySeqID, secondarySeq, traceMatrix, peakPosMatrix, peakAmpMatrix

See Also

abif, scf

Examples

#sample sangerseq object created from abif file
hetsangerseq <- readsangerseq(system.file("extdata",
                                          "heterozygous.ab1",
                                          package = "sangerseqR"))
str(hetsangerseq)
#same for scf files
homosangerseq <- readsangerseq(system.file("extdata",
                                           "homozygous.scf",
                                           package = "sangerseqR"))
str(homosangerseq)