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

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);