modifySettings {Chicago} | R Documentation

## Modify Settings

### Description

Modify the settings in a `chicagoData` object.

### Usage

    modifySettings(cd, designDir=NULL, settings=list(), settingsFile=NULL)

### Arguments

`cd` | A `chicagoData` object.
`designDir` | The new location of the design directory, e.g "~/resources/path" or NULL if not modified.
`settings` | A named list containing settings to modify.
`settingsFile` | The location of a file containing settings or NULL if not provided. Each row should contain the name of a setting, followed by whitespace, followed by the value of that setting.

### Details

`cd`'s settings are updated. For a list of available settings, see `defaultSettings`.

### Value

An object of class `chicagoData`.

### Author(s)

Mikhail Spivakov, Jonathan Cairns, Paula Freire Pritchett

### See Also

`setExperiment`, `defaultSettings`

### Examples

    designDir <- file.path(system.file("extdata", package="Chicago"), "unitTestDesign")

    cd <- setExperiment(designDir)

    ##Suppose I want to change the number of samples drawn for dispersion estimation
    print(settings(cd)$brownianNoise.subset)

    cd <- modifySettings(cd, settings=list(brownianNoise.subset = 10))
    print(settings(cd)$brownianNoise.subset)

[Package Chicago version 1.14.0 Index]