Introduction | A quick example | Including RegEnrich library | Initializing RegenrichSet object | Runing four major steps and obtaining results | RegenrichSet object initialization | The RegenrichSet object | Input data | Expression data | Sample information | Regulators | Other parameters | Differential expression analysis | Use the parameters initialized in the RegenrichSet object | Re-specify the parameters for differential expression analysis | Regulator-target network inference | COEN (based on WGCNA) | GRN (based on random forest) | User defined network | Enrichment analysis | Fisher's exact test (FET) | Gene set enrichment analysis (GSEA) | Regulator scoring and ranking | Case studies | Case 1: Microarray (single-channel) data | Background | Reading the data | RegEnrich analysis | Case 2: RNAseq read count data | Session info | References