Example No-Signal Multi-Omics Pathway Results

Source: R/data_NoSignalExample.R

An example of the input data to the MiniMax statistic parameter estimation functions with no biological (synthetic) signal (the assumed results of finding pathway significance levels for each data platform under the null hypothesis)

nullMiniMaxResults_df

Format

A tibble (a modern data frame created by the tibble package) with two columns:

  • terms the name of a pathway / gene set; this column is called 'terms' for compatibility with pathwayCollection objects from package pathwayPCA.

  • pVal_CNV for copy number variation data, these are the p-values for each pathway

  • pVal_RNAseq for RNAseq expression data, these are the p-values for each pathway

  • pVal_Prot for protein expression data, these are the p-values for each pathway

  • MiniMax the MiniMax statistic value from 3 platforms

Details

This data represents some results from a simulation study we conducted to show the utility of the MiniMax technique. The results in this file are from a no-signal scenario (no treatment group, no treated gene sets / pathways, random binary response).

For the MiniMax statistic to work, the platform-specific p-values must come from a statistical test with well-controlled Type-I error rates.