noOfSites {ChIPanalyser} | R Documentation

## Accessor Method for the `noOfSites` slot in a `parameterOptions` object

### Description

Accessor Method for the `noOfSites` slot in a `parameterOptions` object

### Usage

    noOfSites(object)

### Arguments

`object` | `object` is `parameterOptions` object

### Details

While computing Position Weight Matricies (PWM) from Position Frequency Matricies (PFM), it is possible to restrict the number of sites that will be used to compute the PWM. The default is set at "all". In this case, all sites will be used to compute the PWM.

### Value

Returns the value assigned to the `noOfSites` slot in a `parameterOptions` object.

### Author(s)

Patrick C. N. Martin <p.martin@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)

    #Building data objects
    GPP <- parameterOptions(noOfSites="all")
    #Setting new Value for naturalLog
    noOfSites(GPP)

[Package ChIPanalyser version 1.12.0 Index]