setFwkParam

setFwkParam,mutFrameworkParams,character-method

setFwkParam,mutFrameworkParams,character,ANY-method

an object to extract Signature Identifiers from, i.e. a mutSignExposures-class

string corresponding to the parameter label to be updated

label

new value (string or numeric) of the parameter to be updated

value

Set or update one of the parameters in a mutFrameworkParams-class object. 
Individual paramaters can be set or updated, by passing the parameter label, and the corresponding
parameter value.

Cancer cells accumulate DNA mutations as result of DNA damage and DNA repair processes. This computational framework is aimed at deciphering DNA mutational signatures operating in cancer. The framework includes modules that support raw data import and processing, mutational signature extraction, and results interpretation and visualization. The framework accepts widely used file formats storing information about DNA variants, such as Variant Call Format files. The framework performs Non-Negative Matrix Factorization to extract mutational signatures explaining the observed set of DNA mutations. Bootstrapping is performed as part of the analysis. The framework supports parallelization and is optimized for use on multi-core systems. The software was described by Fantini D et al (2020) <doi:10.1038/s41598-020-75062-0> and is based on a custom R-based implementation of the original MATLAB WTSI framework by Alexandrov LB et al (2013) <doi:10.1016/j.celrep.2012.12.008>.

setFwkParam: Method setFwkParam.

Description

Usage

Arguments