summary.iC10 | R Documentation |
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.
## S3 method for class 'iC10'
summary(object, ...)
object |
An object of |
... |
Additional arguments passed to |
The function prints a table of the classification ad a summary of the maximum posterior probability for each sample.
Oscar M Rueda
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 iC10
and pamr.train
, pamr.cv
and pamr.predict
in package pamr
.
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)
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