GenomicAnnotationsFromLibrary {PREDA} | R Documentation

## Function extracting a GenomicAnnotations object from a Bioconductor annotation library

### Description

Function extracting a GenomicAnnotations object from a Bioconductor annotation library

### Usage

    GenomicAnnotationsFromLibrary(annotLibrary, probeIDs = NULL,
    retain.chrs = NULL, optionalAnnotations = NULL)

### Arguments

`annotLibrary` | Character string containing the name of the annotations library to be used for building the GenomicAnnotations object
`probeIDs` | Optional: list of reference id from the selected annotLibrary to be used for building the GenomicAnnotations object
`retain.chrs` | Numeric vector, containing the list of chromosomes selected for the output GenomicAnnotations object. E.g. set retain.chrs=1:22 to limit the GenomicAnnotations object to chromosomes from 1 to 22. This might be ueseful to limit GenomiAnnotations objects to autosomic chromosomes.
`optionalAnnotations` | Character vector to select additional annotations fields to be included into the GenomicAnnotations object.

### Value

An object of class `"GenomicAnnotations"`

### Author(s)

Francesco Ferrari

### See Also

`"GenomicAnnotations"`

### Examples

    ## Not run:

    GEGenomicAnnotations<-GenomicAnnotationsFromLibrary(annotLibrary=
    "org.Hs.eg.db", retain.chrs=1:22)

    # with optional annotations Genesymbols and EntrezGeneIDs
    GEGenomicAnnotations<-GenomicAnnotationsFromLibrary(annotLibrary=
    "hgu133plus2.db", retain.chrs=1:22,
    optionalAnnotations=c("SYMBOL", "ENTREZID"))

    ## End(Not run)

[Package PREDA version 1.40.0 Index]