seq.QSAM: QSAM-transformation of DNA sequences
In RedJane/tfbs.qsam: The analysis of TFBS by QSAM

Description Usage Arguments Value Author(s) See Also Examples

The function converts a DNA sequence into QSAM-vector. There are 2 predefined types of QSAM values nuclotides, but it is also possible to set another one for calculations.

1 2	## S3 method for class 'QSAM' seq(s, QSAM = "QSAM1")

`s`	DNA-sequence
`QSAM`	QSAM matrix 4*n, where n is a number of properties; possible values are 'QSAM1' and 'QSAM2'

a numeric vector with length equal to number_of_nucleotides*n

Evgenia Temlyakova

QSAM.seq

seq.QSAM('AAATTGCGC')

myQSAM<-as.data.frame(matrix(c(-2.23, 0.79, 2.37, 0.72,  0.32, -3.76, 1.92, 2.52), nrow=4, byrow=TRUE))
rownames(myQSAM)<-c('A', 'C', 'G', 'T')
seq.QSAM('AAATTGCGC', QSAM=myQSAM)