SVA confounding analysis framework

Description Usage Arguments Details Value

Get a matrix containing the signals for the control probes of a given RGChannelSet object.

1	get_control_variables(rgset)

rgset

An RGChannelSet object containing the control data.

The function get_control_variables just takes a RGChannelSet object as input, accesses the values of its control probes, and returns them as a numeric matrix.

This is an internal function. Its purpose is to provide the main analysis functions with more data to test. It is usually useful to test if control probes are introducing some confounding in the dataset, as it might be signaling that there are unknown effects in the data.

A matrix with the values of the control elements.

Keyeoh/svconfound documentation built on May 15, 2019, 1:25 p.m.