getAM.ChipEffectSet: Gets the log-intensities and log-ratios of chip effects of...

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

Gets the log-intensities and log-ratios of chip effects of the set relative to a reference chip effect file

Description

Gets the log-intensities and log-ratios of chip effects of the set relative to a reference chip effect file.

Usage

## S3 method for class 'ChipEffectSet'
getAM(this, other, units=NULL, ..., verbose=FALSE)

Arguments

other	The second ChipEffectFile object used as the reference.
units	(The subset of units to be matched. If NULL, all units are considered.
...	Not used.
verbose	See Verbose.

Value

Returns an Jx2xK array where J is the number of units, and K is the number of arrays (arrays are always the last dimension). The names of the columns are A (log-intensities) and M (log-ratios). The names of the rows are the unit indices (as indexed by the CDF). The rows are ordered according to units arguments.

Author(s)

Henrik Bengtsson

See Also

For more information see ChipEffectSet.

aroma.affymetrix documentation built on Aug. 21, 2025, 5:30 p.m.