select_rho_partial: Data preprocessing for partial correlation analysis

In ressomlab/INDEED: Interactive Visualization of Integrated Differential Expression and Differential Network Analysis for Biomarker Candidate Selection

Data preprocessing for partial correlation analysis

Description

A method that integrates differential expression (DE) analysis and differential network (DN) analysis to select biomarker candidates for cancer studies. select_rho_partial is the pre-processing step for INDEED partial differential analysis.

Usage

select_rho_partial(
  data = NULL,
  class_label = NULL,
  id = NULL,
  error_curve = TRUE
)

Arguments

data	This is a p*n dataframe that contains the expression levels for all biomolecules and samples.
class_label	This is a 1*n dataframe that contains the class label with 0 for group 1 and 1 for group 2.
id	This is a p*1 dataframe that contains the ID for each biomolecule.
error_curve	This is a boolean value indicating whether to plot the error curve (TRUE) or not (FALSE). The default is TRUE.

Value

A list of processed data for the next step, and an error curve to select optimal rho value for graphical lasso.

Examples

select_rho_partial(data = Met_GU, class_label = Met_Group_GU, id = Met_name_GU, 
    error_curve = TRUE)

ressomlab/INDEED documentation built on Aug. 3, 2022, 4:45 p.m.