affycoretools (version 1.38.0)

getUniqueLL: Subset a Vector of Probesets

Description

This function will take a vector of Affy IDs and return a vector of Entrez IDs that have replicated IDs removed. The resulting vector will still have the corresponding Affy IDs appended as names, which is important for some functions.

Usage

getUniqueLL(probes, annot)

Arguments

probes

A vector of probe IDs

annot

The annotation package for the chip used

Value

A named vector of unique Entrez IDs

Details

Subsetting a set of Affy IDs to unique Entrez Gene IDs is a common thing to do prior to doing a hypergeometric test. Functions such as hyperGTest can use un-named vectors of Entrez IDs (e.g., unique(getLL(probeIDs, annot))), but there is some functionality that requires the Entrez Gene IDs to be in a named vector, with the names being the associated Probeset IDs.

As an example, hyperGoutput will only work correctly if the input Entrez ID vector is named with the associated Probeset IDs.