MEET (version 5.1.1)

Alignment: To line up Transcription Factor Binding sites through Multiple Sequence Alignment (MSA)

Description

This function, Alignment, lines up Transcription Factor Binding Sites, TFBS, through MSA. There are different kinds of MSA: MEME, Clustalw and Muscle

Usage

Alignment(TF,iicc)

Arguments

TF

Transcription Factor

iicc

A set of initial conditions for the MEET-package

Examples

require("MEET")
data(iicc)
pathMEET <- system.file("sequences", package = "MEET")
Alignment(TF=paste(pathMEET, "AP1.fa", sep = "/"),iicc)