findMotifWithConsensus: Finds score and consensus along with aligment and profile...

In frosinastojanovska/Bioinformatics: A collection of functions for Bioinformatics

Description

Finds score and consensus along with aligment and profile matrices for given DNA sequences and start positions.

Usage

findMotifWithConsensus(DNA, startPositions, l)

Arguments

DNA	A matrix with DNA sequences in each row.
startPositions	A vector with start position for every DNA sequence.
l	Lenght of the motif.

Value

List with the aligment matrix, profile matrix, score and consensus.

Examples

DNA <- matrix(c("A","C","A","C","A","C","G","A","A","C","U","G","A","C","G","C","A","C","G","G","G","C","U","A"), nrow=4, ncol=6)
startPositions <- c(1,2,1,3)
findMotifWithConsensus(DNA, startPositions, 4)

frosinastojanovska/Bioinformatics documentation built on May 16, 2019, 3:32 p.m.