getPatientOutlierMatrix

patExpMatrix


The threshold, the default value is 2 ( the gene expression values outside the 2 standard deviation range are considered as outliers).



Given a real-value patient expression matrix, compute the patient outlier matrix and remove the genes which are not expressed.


 methods 

DriverNet is a package to predict functional important
driver genes in cancer by integrating genome data (mutation and
copy number variation data) and transcriptome data (gene
expression data). The different kinds of data are combined by
an influence graph, which is a gene-gene interaction network
deduced from pathway data. A greedy algorithm is used to find
the possible driver genes, which may mutated in a larger number
of patients and these mutations will push the gene expression
values of the connected genes to some extreme values.

Jiarui Ding

DriverNet

Drivernet: uncovering somatic driver mutations modulating
transcriptional networks in cancer

getPatientOutlierMatrix function

The threshold, the default value is 2 ( the gene expression values outside the 2 standard deviation range are considered as outliers).

Given a real-value patient expression matrix, compute the patient outlier matrix and remove the genes which are not expressed.

getPatientOutlierMatrix: Compute the patient outlier matrix

Description

Usage

Arguments

Value

See Also

Examples