select_sig: Select biomarker candidates

In cx30/INDEED: An Implementation of Integrated Differential Expression and Differential Network Analysis for Biomarker Candidate Selection

Description

A method that integrates differential expression (DE) analysis and differential network (DN) analysis to select biomarker candidates for survival time prediction.

Usage

select_sig(x = NULL, class_label = NULL, id = NULL, partial = NULL,
  method = NULL, p_val = NULL)

Arguments

x	a data frame consists of data from group 1 and group 2.
class_label	a binary array with 0: group 1; 1: group 2.
id	an array of biomolecule ID.
partial	logical. If TRUE the sparse differential network will be obtained by using partial correlation. If FALSE, correlation.
method	a character string indicating which correlation coefficient is to be computed. One of "pearson" (default) or "spearman".
p_val	a path to either a data frame or matrix that contains p-values or NULL.

Value

data frames INDEED_result and Met_dn

Examples

select_sig(Met_GU, Met_Group_GU, Met_name_GU, partial = TRUE)

cx30/INDEED documentation built on May 5, 2019, 2:41 a.m.