snpRF (version 0.4)

outlier: Compute outlying measures

Description

Compute outlying measures based on a proximity matrix.

Usage

"outlier"(x, cls=NULL, ...) "outlier"(x, ...)

Arguments

x
a proximity matrix (a square matrix with 1 on the diagonal and values between 0 and 1 in the off-diagonal positions); or an object of class snpRF.
cls
the classes the rows in the proximity matrix belong to. If not given, all data are assumed to come from the same class.
...
arguments for other methods.

Value

A numeric vector containing the outlying measures. The outlying measure of a case is computed as n / sum(squared proximity), normalized by subtracting the median and divided by the MAD, within each class.

See Also

snpRF

Examples

Run this code
set.seed(1)
data(snpRFexample)
eg.rf <- snpRF(x.autosome=autosome.snps,x.xchrom=xchrom.snps,
               xchrom.names=xchrom.snps.names,x.covar=covariates, 
               y=phenotype, proximity=TRUE)
plot(outlier(eg.rf), type="h",
     col=c("red", "green", "blue")[as.numeric(phenotype)])

Run the code above in your browser using DataCamp Workspace