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oligo (version 1.36.1)

getNetAffx: NetAffx Biological Annotations

Description

Gets NetAffx Biological Annotations saved in the annotation package (Exon and Gene ST Affymetrix arrays).

Usage

getNetAffx(object, type = "probeset")

Arguments

object
'ExpressionSet' object (eg., result of rma())
type
Either 'probeset' or 'transcript', depending on what type of summaries were obtained.

Value

  • 'AnnotatedDataFrame' that can be used as featureData(object)

Details

This retrieves NetAffx annotation saved in the (pd) annotation package - annotation(object). It is only available for Exon ST and Gene ST arrays.

The 'type' argument should match the summarization target used to generate 'object'. The 'rma' method allows for two targets: 'probeset' (target='probeset') and 'transcript' (target='core', target='full', target='extended').