iC10 (version 2.0.2)

summary.iC10: Summary results of the iC10 classifier

Description

Summary results of the iC10 classifier: shows the distribution of samples classified into each iC10 group and a summary of the maximum posterior probablity for each sample. Small values pinpoint samples with no clear group assigned.

Usage

# S3 method for iC10
summary(object, ...)

Value

The function prints a table of the classification ad a summary of the maximum posterior probability for each sample.

Arguments

object

An object of iC10 class.

...

Additional arguments passed to summary.

Author

Oscar M Rueda

References

Ali HR et al. Genome-driven integrated classification of breast cancer validated in over 7,500 samples. Genome Biology 2014; 15:431. Curtis et al. The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature 2012; 486:346-352. Tibshirani et al. Diagnosis of multiple cancer types by shrunken centroids of gene expression. PNAS 2002; 99(10):6567-6572.

See Also

See iC10 and pamr.train, pamr.cv and pamr.predict in package pamr.

Examples

require(iC10TrainingData)
data(train.CN)
data(train.Exp)
features <- matchFeatures(Exp=train.Exp,
Exp.by.feat="probe", ref="hg18")
features <- normalizeFeatures(features, "scale")
res <- iC10(features)
summary(res)