IdMappingRetrieval (version 1.20.0)

getIdMap.Annotation: Get an IdMap object using the data retrieved by a particular service represented by annotation object

Description

Get an IdMap object using the data retrieved by a particular service represented by annotation object.

Usage

"getIdMap"(this, arrayType="menu", primaryKey=NULL, secondaryKey=NULL, force=FALSE, graphics=TRUE, verbose=FALSE, ...)

Arguments

arrayType

A character string representing the array name. If 'menu', the list of available arrays is displayed allowing to select the array type of interest.

primaryKey

The name which will be assigned to the IdMap object primary column at the end of a data retrieval process.

secondaryKey

The name which will be assigned to the IdMap object secondary column at the end of a data retrieval process.

force

If TRUE forces the system to update the content of service data directory even if contained the data before. Used to update the annotation data if necessary. Default is FALSE.

graphics

If TRUE (default), the attempt to will be made to use graphical capabilities of the rChoiceDialogs package to display selection choices (items, files etc.) in a graphical form.

verbose

if TRUE enables diagnostic messages. Default is FALSE.

...

Additional parameters.

Value

See Also

For more information see Annotation.

Examples

## Not run: 
#   Annotation$init();
#   Annotation$setCredentials("Affymetrix",user="[e-mail]",password="125438",verbose);
#   #create Affymetrix annotation object
#   annObj=AnnotationAffx();
#   #retrieve the ID Map
#   idMap<-getIdMap(annObj,arrayType="HG-U133_Plus_2",primaryKey="Affy",secondaryKey="Uniprot",verbose=TRUE);
# ## End(Not run)