Methods for Sequences {oligo}R Documentation

Methods to deal with sequences.

Description

Methods to access and create design matrices for sequences.

Usage

pmSequence(x)
mmSequence(x)
sequenceDesignMatrix(seqs)

Arguments

x FeatureSet object.
seqs character vector containing sequences of same length.

Value

pmSequence and mmSequence return a character vector with the sequences for the PM and MM probes respectively.
sequenceDesignMatrix returns a matrix of indicator variables with length(seqs) lines and 3*nchar(seqs[1]) columns. The name of the columns use the format X.Y standing for the indicator variable of base X at position Y.

Examples

## Do not run
##
## FeatureSetObject <- read.celfiles(list.celfiles())
## pmSeqs <- pmSequence(FeatureSetObject)
## dMatrix <- sequenceDesignMatrix(pmSeqs)

[Package oligo version 0.99.15 Index]