IGSAinput-getterSetters {MIGSA} | R Documentation

## Accessors for IGSAinput class

### Description

Getters and setters functions to access IGSAinput object slots.

### Usage

    `IGSAinput-getterSetters`(object)

    name(object)

    ## S4 method for signature 'IGSAinput'
    name(object)

    name(object) <- value

    ## S4 replacement method for signature 'IGSAinput'
    name(object) <- value

    fitOptions(object)

    ## S4 method for signature 'IGSAinput'
    fitOptions(object)

    fitOptions(object) <- value

    ## S4 replacement method for signature 'IGSAinput'
    fitOptions(object) <- value

    exprData(object)

    ## S4 method for signature 'IGSAinput'
    exprData(object)

    exprData(object) <- value

    ## S4 replacement method for signature 'IGSAinput'
    exprData(object) <- value

    geneSetsList(object)

    ## S4 method for signature 'IGSAinput'
    geneSetsList(object)

    geneSetsList(object) <- value

    ## S4 replacement method for signature 'IGSAinput'
    geneSetsList(object) <- value

    gseaParams(object)

    ## S4 method for signature 'IGSAinput'
    gseaParams(object)

    gseaParams(object) <- value

    ## S4 replacement method for signature 'IGSAinput'
    gseaParams(object) <- value

    seaParams(object)

    ## S4 method for signature 'IGSAinput'
    seaParams(object)

    seaParams(object) <- value

    ## S4 replacement method for signature 'IGSAinput'
    seaParams(object) <- value

### Arguments

`object` | IGSAinput object.
`value` | value to replace in the slot.

### Value

Modified IGSAinput object or desired slot.

### See Also

`IGSAinput-class`

### Examples

    ## Lets create a basic IGSAinput object.
    ## First create a expression matrix.
    maData <- matrix(rnorm(10000), ncol = 4)
    rownames(maData) <- 1:nrow(maData)
    # It must have rownames (gene names).
    maExprData <- new("MAList", list(M = maData))
    ## Now lets create the FitOptions object.
    myFOpts <- FitOptions(c("Cond1", "Cond1", "Cond2", "Cond2"))
    ## And now we can create our IGSAinput ready for MIGSA.
    igsaInput <- IGSAinput(
      name = "igsaInput", expr_data = maExprData,
      fit_options = myFOpts
    )
    ## Lets get igsaInput values, and modify its name.
    name(igsaInput)
    name(igsaInput) <- "newName"
    fitOptions(igsaInput)
    exprData(igsaInput)
    geneSetsList(igsaInput)
    gseaParams(igsaInput)
    seaParams(igsaInput)

[Package MIGSA version 1.12.0 Index]