getNetAffx: NetAffx Biological Annotations

In oligo: Preprocessing tools for oligonucleotide arrays

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.

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').

Value

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

Author(s)

Benilton Carvalho

oligo documentation built on Nov. 8, 2020, 6:52 p.m.