R: The SamSummary Class

SamSummary-class {ClassComparison}

R Documentation

The SamSummary Class

Description

An implementation class. Users are not expected to create these objects directly; they are produced as return objects from the summary method for Sam.

Slots

fdr:: A number between 0 and 1; the expected false discovery rate
hi:: Upper threshold for significance
lo:: Lower threshold for significance
cutoff:: A numeric value specified in the call to the Sam

significant.calls:

vector of logical values

average.false.count:

The average number o false positives in the permuted data at this cutoff level.

Methods

show: signature(object = SamSummary): Print the object, which contains a summary of the underlying Sam object. In particular, the summary reports the number of genes acheiving each possible number of misclassifications.

Author(s)

Kevin R. Coombes <kcoombes@mdanderson.org>

Examples

# See the examples for the Sam class.