buildMACAT {macat} | R Documentation

## Create MACAT list from objects in workspace

### Description

This is a wrapper around the preprocessedLoader function. Use it, when you want to build a MACAT-list structure from objects already in your workspace.

### Usage

    buildMACAT(matrix, chip, labels = NULL, chromLocObj = NULL)

### Arguments

`matrix` | expression matrix with rows=genes and columns=samples; Rownames have to match chip; Columnnames are not mandatory.
`chip` | Identifier for used microarray
`labels` | Classlabels for samples, has to have length=number of columns in matrix
`chromLocObj` | Object of class `chromLocation` specifying the genomic position, each probe on the array is mapped to. If not provided, it is build in the function using `annotate`'s function `buildChromLocation`.

### Details

This is only a convenience wrapper around the function `preprocessedLoader` for the case, that you want to build a MACAT-list from objects in your workspace.

### Value

A MACAT-list structure. For an example and a description of the format see data `stjude` in package 'stjudem'.

### Author(s)

MACAT development team

### See Also

`preprocessedLoader`,`stjude` in package 'stjudem'

### Examples

     X <- matrix(rnorm(200),nrow=20,ncol=10)
     rownames(X) <- c('34916_s_at','34917_at','34462_at','163_at','35219_at',
            '31641_s_at','33300_at','33301_g_at','38950_r_at','41249_at',
            '294_s_at','32004_s_at','33299_at','41243_at','33341_at','362_at',
            '1918_at','41499_at','41500_at','41282_s_at')
     colnames(X) <- paste("Sample",1:10,sep="")
     y <- rep(c("A","B"),c(5,5))
     toy <- buildMACAT(X,"hgu95av2",y)
     summary(toy)

[Package macat version 1.10.0 Index]