GenomeAnnotatedDataFrameFrom-methods {oligoClasses} | R Documentation

## Methods for Function GenomeAnnotatedDataFrameFrom in Package oligoClasses

### Description

`GenomeAnnotatedDataFrameFrom` is a convenience for creating `GenomeAnnotatedDataFrame` objects.

### Methods

Use the method with `GenomeAnnotatedDataFrameFrom(object, annotationPkg, genome, ...)`; the argument `annotationPkg` must be specified for `matrix` and `AssayData` classes.

`signature(object="assayData")`

  This method creates an `GenomeAnnotatedDataFrame` using feature names and dimensions of an `AssayData` object as a template.

`signature(object="matrix")`

  This method creates an `GenomeAnnotatedDataFrame` using row names and dimensions of a `matrix` object as a template.

`signature(object="NULL")`

  This method (called with 'NULL' as the object) creates an empty `GenomeAnnotatedDataFrame`.

`signature(object="array")`

  This method (called with 'array' as the object) creates a GenomeAnnotatedDataFrame using the first dimension of the array (rows are the number of features).

### Author(s)

R Scharpf

### Examples

    	require(Biobase)
    	minReqVersion <- "1.0.2"
    	require(human370v1cCrlmm)
    	if (packageDescription("human370v1cCrlmm", fields='Version') >= minReqVersion){
    		x <- matrix(1:25, 5, 5,
    			    dimnames=list(c("rs10000092","rs1000055", "rs100016", "rs10003241", "rs10004197"), NULL))
    		gd <- GenomeAnnotatedDataFrameFrom(x, annotationPkg="human370v1cCrlmm",
    						   genome="hg18")
    		pData(gd)
    		chromosome(gd)
    		position(gd)
    	}

[Package oligoClasses version 1.56.0 Index]