computeAffinities.AffymetrixCdfFile: Calculates probe affinities from sequence

In aroma.affymetrix: Analysis of Large Affymetrix Microarray Data Sets

Calculates probe affinities from sequence

Description

Calculates probe affinities from sequence.

Adapted from compute.affinities in the gcrma package. Attempts to find the tab-separated probe sequence file associated with a particular CDF, and matches sequence to probe index in order to assign an affinity to each probe.

Usage

## S3 method for class 'AffymetrixCdfFile'
computeAffinities(this, safe=TRUE, force=FALSE, verbose=FALSE, ...)

Arguments

safe	A logical argument passed to getProbeSequenceData().
force	If FALSE, cached results is returned, if available.
verbose	See Verbose.
...	Not used.

Value

Returns a numeric vector of (log2) probe affinities, of length equal to the total number of features on the array.

Author(s)

Ken Simpson, Henrik Bengtsson, Mark Robinson

aroma.affymetrix documentation built on May 29, 2024, 4:32 a.m.