evaluateStability: Evaluate Results Stability.

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

Evaluate Results Stability.

Description

Perform a final Stability check comparing the results from all iterations of the analysis.

Usage

evaluateStability(wall, hall, params)

Arguments

wall	numeric matrix including the w results from all the iterations of the analysis
hall	numeric matrix including the h results from all the iterations of the analysis
params	list including all the parameters required for running tha analysis

Details

The function evaluates the results from all iterations by performing a silhouette check. A silhouette plot will also be plotted. This is one of the core functions included in the original mutSignatures R library, and in the WTSI MATLAB framework. This is an internal function.

Value

list including all results from the stability checks. This includes the most likely signatures (cen-troids) and exposures. All information for plotting the silhouette plot will also be returned.

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. WTSI framework: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3588146/

Examples

# Obtain sample data
TMP <- mutSignatures:::getTestRunArgs("evaluateStability")
Y <- mutSignatures:::evaluateStability(wall = TMP$W,
                                       hall = TMP$H,
                                       params = TMP$params)

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