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| DCGL-package | Differential Co-expression Analysis and Differential Regulation Analysis of Gene Expression Microarray Data |
| ASC | Identify DCGs (Differential Coexpressed Genes) based on 'Average Specific Connection' |
| DCe | Identify DCGs (Differentially Coexpressed Genes) and DCLs (Differentially Coexpressed Links) |
| DCGL | Differential Co-expression Analysis and Differential Regulation Analysis of Gene Expression Microarray Data |
| DCp | Identify DCGs (Differential Coexpressed Genes) based on the 'Differential Coexpression Profile' |
| DCsum | Summarize DCGs and DCLs |
| DRplot | Visualization of DRLs |
| DRrank | Ranking Regulators by Target Enrichment Density (TED) and Targets' DCL Density (TDD) |
| DRsort | Identify DRGs (Differential regulated Genes) and DRLs (Differential regulated Links) |
| expressionBasedfilter | Filter genes according to expression level |
| exprs | Real dataset pulled down from GEO (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE17967) |
| exprs_design | Experiment design of microarray matrix data |
| intgenelist | Interesting genes list |
| LFC | Select DCLs based on 'Limit Fold Change' model |
| LRC | Identify DCGs (Differential Coexpressed genes) based on 'Log Ratio Connections' |
| percentLinkfilter | Filter gene coexpression links according to the top percent of expression correlation coefficient value |
| qLinkfilter | Filter gene coexpression links according to the q-values of expression correlation values |
| RIF | Ranking Regulators by Regulator Impact Factor (RIF) Method |
| rLinkfilter | Filter gene coexpression links according to correlation coefficient value |
| tf2target | The dataset of human Transcription Factors regulate potential target genes |
| varianceBasedfilter | To filter genes according to expression variability |
| WGCNA | Identify DCGs (Differential Coexpressed Genes) based on the 'Weighted Gene Coexpression Network Analysis' |