det.set.meta: Split data for meta analysis.

In survJamda: Survival Prediction by Joint Analysis of Microarray Gene Expression Data

Description

Split data into the training and testing sets for meta analysis.

Usage

det.set.meta(i, j, geno.files, surv.data, method)

Arguments

i	A vector of character strings consisting of the names of the expression files used for the training set.
j	A character string specifying the name of the expression file used for the testing set.
geno.files	A vector of character strings consisting of the names of the expression files.
surv.data	A list of two vectors, survival time and censoring status. In the censoring status vector, 1 = event occurred, 0 = censored.
method	A character string specifying the feature selection method: "none" for top-100 ranking or one of the adjusting methods specified by the p.adjust function

Details

In top-ranking, genes are selected based on univariate Cox P-value ranking using the coxph function in the R survival package. In this feature selection method, the genes are ranked based on their likelihood ratio P-value and the top-100 ranked genes with the smallest P-values are retained as the gene signature.

The p.adjust function in the R stats package is used and all adjusted p-values not greater than 0.05 are retained if method != "none".

Value

None.

Author(s)

Haleh Yasrebi

survJamda documentation built on May 1, 2019, 8:50 p.m.