getPosProb {TFBSTools} | R Documentation

## Get the emission probabilities of nucleotides

### Description

Get the emission probabilities of ACGT at each position of TFFM.

### Usage

      getPosProb(tffm)

### Arguments

`tffm` | A `TFFMFirst` object or a `TFFMDetail` object.

### Details

This function calculates the probabilities of emitting nucleotides ACGT at each position of TFFM.

### Value

A matrix of `numeric` with dimensions of 4 * `ncol(tffm)`.

### Author(s)

Ge Tan

### See Also

`getEmissionProb`

### Examples

      xmlFirst <- file.path(system.file("extdata", package="TFBSTools"),
                            "tffm_first_order.xml")
      tffmFirst <- readXMLTFFM(xmlFirst, type="First")
      getPosProb(tffmFirst)

      xmlDetail <- file.path(system.file("extdata", package="TFBSTools"),
                             "tffm_detailed.xml")
      tffmDetail <- readXMLTFFM(xmlDetail, type="Detail")
      getPosProb(tffmDetail)

[Package TFBSTools version 1.18.0 Index]