GreedyMotifSearch: GreedyMotifSearch

In Ant-nguyen/RmuMotif: Useful functions to help find motifs in DNA sequences.

Description

Given a series of DNA sequences this function will return the most probably motif in each sequence taking into account the other DNA sequences.This uses a 'Greedy" method that is very computationally simple allowing for quick fast results.

Usage

GreedyMotifSearch(DNAseqs, k, t, pseudo = FALSE)

Arguments

DNAseqs	A vector of character strings representing a series of DNA sequences
k	An integer Value representing how long of kmer ins interested
t	An integer value representing how many of the DNAseqs one wish to incorporate
pseudo	A TRUE or FALSE condition, default FALSE. If TRUE will implement pseudo counts which alleviates biases against some single point mutations

Value

A vector of best scoring Motifs

Examples

GreedyMotifSearch(sampleDNAseq,3,4)

Ant-nguyen/RmuMotif documentation built on Jan. 13, 2022, 5:17 p.m.