DNAStringSetTPR {CleanBSequences}

Curing of biological sequences

Description

Curates biological sequences of two restriction enzyme primers or cloning vectors.This cleaning is required for techniques such as cDNA-AFLP.This cleaning is required for techniques such as cDNA-AFLP.

Usage

DNAStringSetTPR(SEQs, PrimerF, PrimerR)

Arguments

SEQs

file with fasta format containing biological sequences that are to be cleaned.

PrimerF

dnastring containing the foward primer/vector sequences to be removed.

PrimerR

dnastring containing the reverse primer/vector sequences to be removed.

Value

clean biological sequences and visualization of the alignments

Author(s)

Florencia I Pozzi, Silvina A. Felitti

Examples

SEQs = readDNAStringSet(system.file("sequences","SeqInputTPR.fasta", package = "CleanBSequences"))
PrimerR= DNAString ("GACTGCGTACCATGC")
PrimerF = DNAString("GATGAGTCCTGACCGAA")
DNAStringSetTPR (SEQs,PrimerF,PrimerR)