PositionWeightMatrix {ChIPanalyser} | R Documentation

## Accessor Method for the `PWM` slot in a `genomicProfileParameters` object

### Description

Accessor Method for the `PWM` slot in a `genomicProfileParameters` object

### Usage

    PositionWeightMatrix(object)

### Arguments

`object` | `object` is a `genomicProfileParameters`

### Details

After creating a `genomicProfileParameters` object, it is possible to access the Position Weight Matrix stored in this slot. This slot should always contain something. This slot is either supplied by user or directly computed from a Position Frequency Matrix when supplied.

### Value

Returns a matrix in the form of a Position Weight Matrix

### Author(s)

Patrick C. N. Martin <pm16057@essex.ac.uk>

### References

Zabet NR, Adryan B (2015) Estimating binding properties of transcription factors from genome-wide binding profiles. Nucleic Acids Res., 43, 84–94.

### Examples

    #Loading data
    data(ChIPanalyserData)
    #Loading PFM files
    PFM <- file.path(system.file("extdata",package="ChIPanalyser"),"BCDSlx.pfm")
    #Building genomicProfileParameters object
    GPP<-genomicProfileParameters(PFM=PFM)
    # Accessing Slot
    PositionWeightMatrix(GPP)

[Package ChIPanalyser version 1.2.0 Index]