kuncheva: Kuncheva's Index

In OmicsMarkeR: Classification and Feature Selection for 'Omics' Datasets

Description

Calculates Kuncheva's index between two vectors of features. In brief, the closer to 1 the more similar the vectors. The two vectors must have the same cardinality (i.e. same length).

Usage

kuncheva(x, y, num.features)

Arguments

x	Character vector of feature names
y	Character vector of feature names
num.features	total number of features in the original dataset

Value

Returns the Kuncheva Index for the two vectors. It takes values in [0,1], with 0 meaning no overlap between two sets and 1 meaning two sets are identical.

Note

The returned Kuncheva Index has been scaled from its original [-1,1] range to [0,1] in order to make it compatible with RPT.

Author(s)

Charles E. Determan Jr.

References

Kuncheva L. (2007) A stability index for feature selection. Proceedings of the 25th IASTED International Multi-Conference: Artificial Intelligence and Applications. pp. 390-395.

He. Z. & Weichuan Y. (2010) Stable feature selection for biomarker discovery. Computational Biology and Chemistry 34 215-225.

See Also

kuncheva, sorensen, ochiai, pof, pairwise.stability, pairwise.model.stability

Examples

# Kuncheva demo
# Assuming 50 metabolites were measured
# But only 10 were found significant

# For demonstration purposes only!!!
some.numbers <- seq(20)

# Metabolites identified from one run
v1 <- paste("Metabolite", sample(some.numbers, 10), sep="_")
# Metabolites identifed from second run
v2 <- paste("Metabolite", sample(some.numbers, 10), sep="_")
kuncheva(v1, v2, 50)

Example output

[1] 0.6875

OmicsMarkeR documentation built on April 28, 2020, 6:54 p.m.