GSEAResult-class: GSEAResult-class: Class storing GSEA Results

In CogDisResLab/BioPathNet: BioPathNet: Three Pod Analysis System

GSEAResult-class: Class storing GSEA Results

Description

This class stores the input parameters and results of the Gene Set Enrichment Analysis.

Value

an object of class GSEAResult

Slots

alpha

numeric. The Alpha threshold for significance

threshold_up

numeric. The logfc threshold for up-regulated genes

threshold_down

numeric. The logfc threshold for down-regulated genes

upregulated_genes

tbl_df. The up-regulated genes from the input DEG tibble

pathways

tbl_df. The pathways we used, either built-in or user-supplied

downregulated_genes

tbl_df. The down-regulated genes from the input DEG tibble

pos_enriched

tbl_df. The positively enriched pathways

neg_enriched

tbl_df. The negatively enriched pathways

sig_pos_enriched

tbl_df. Significant positively enriched pathways

sig_neg_enriched

tbl_df. Significant positively enriched pathways

num_upreg

numeric. Number of up-regulated genes

num_downreg

numeric. Number of down-regulated genes

num_tested

numeric. Number of pathways tested

num_pos_enriched

numeric. Number of positively enriched pathways

num_neg_enriched

numeric. Number of negatively enriched pathways

num_sig_pos_enriched

numeric. Number of significant positively enriched pathways

num_sig_neg_enriched

numeric. Number of significant negatively enriched pathways

empty

logical. A simple check for whether or not the object is empty

Examples

TRUE

CogDisResLab/BioPathNet documentation built on June 29, 2023, 2:28 p.m.