probeR.openggobi.with {ProbeR}R Documentation

Explore summary and probe level data with the reliability - dynamic version

Description

With GGobi, the user can explore summary and probe level data with the reliability dynamically. The user also can add their own results from other statistical analysis.

Usage

probeR.openggobi.with(data.summary, data.probe,selected.id,data.user.define)

Arguments

data.summary the summary values from the function exprs
data.probe the normalized probe level data. They should be normalized using the same method for the summary values. Also they should be the same probe level data calculating the summary values. If the user use RMA with PM values, this should be only PM values.
selected.id the user selected id for statistical analysis result using other method
data.user.define the user defined data for statistical analysis result using other method

Author(s)

Eun-Kyung Lee, Dianne Cook, Heike Hofmann, Maneesha Aluru, and Steve Rodermel

References

Using Reliability with Gene Expression Models

See Also

probeR, ~~~

Examples

library(affy)
data(affybatch.example)
eset<-expresso(affybatch.example,bg.correct=FALSE,normalize.method="quantiles",pmcorrect.method="pmonly",summary.method="medianpolish")
data.summary<-exprs(eset)
probe.norm<-normalize.AffyBatch.quantiles(affybatch.example,type="pmonly")
data.probe<-log(probes(probe.norm),base=2)
probeR.openggobi.with(data.summary,data.probe)

[Package ProbeR version 2.0 Index]