aqm.spatial {arrayQualityMetrics}R Documentation

Performs spatial distribution representation of the arrays from aqmobj.prepdata objects.

Description

aqm.spatial performs representation of the spatial distribution of the intensities on the arrays, outlier detection and formats the output for aqm.plot usage.

Usage

 aqm.spatial(expressionset, dataprep, scale) 

Arguments

expressionset Same input as for the function arrayQualityMetrics
dataprep An object of class aqmobj.prepdata
scale The spatial distribution can be represented on the rank of the intensities or on the logarithm scale. Possible options are thus 'Rank' and 'Log'.

Details

See the aqm.prepdata help or the aqm Vignette for example of this object.

Value

An object of class aqmobj.spatial.

Author(s)

Audrey Kauffmann <audrey@ebi.ac.uk>

See Also

aqm.prepdata, aqmobj.prepdata, aqmobj.spatial


[Package arrayQualityMetrics version 2.2.3 Index]