silhouetteMLB: Silhouette Analysis.

In dami82/mutSignatures: Decipher Mutational Signatures from Somatic Mutational Catalogs

Silhouette Analysis.

Description

Analyze the clustering quality and generate a Silhouette Plot.

Usage

silhouetteMLB(data, fac, method = "cosine", plot = TRUE)

Arguments

data	numeric matrix
fac	clustering factor
method	method to be used as distance function. Defaults to c("cosine")
plot	logical, shall a barplot showing the cluster silhouettes be printed

Value

numeric vector including the silhouette values of the data poointts in the input matrix

Author(s)

Damiano Fantini, [e-mail]

References

More information and examples about mutational signature analysis can be found here:

1. Official website: http://www.mutsignatures.org

2. More info and examples about the mutSignatures R library: https://www.data-pulse.com/dev_site/mutsignatures/

3. Oncogene paper, Mutational Signatures Operative in Bladder Cancer: https://www.nature.com/articles/s41388-017-0099-6

4. Silhouette analysis in R: http://www.biotechworld.it/bioinf/2017/01/20/translating-matlabs-silhouette-function-to-r/

Examples

library(mutSignatures)
x <- mutSignatures:::getTestRunArgs("silhouetteMLB")
y <- silhouetteMLB(data = x$data, fac = x$fac)
y

dami82/mutSignatures documentation built on Jan. 24, 2023, 12:21 a.m.