RTN-package             Reconstruction and Analysis of Transcriptional
                        Networks.
TNA-class               Class '"TNA"': an S4 class for Transcriptional
                        Network Analysis.
TNI-class               Class '"TNI"': an S4 class for Transcriptional
                        Network Inference.
dt4rtn                  A pre-processed dataset for the RTN package.
tna.get                 Get information from individual slots in a TNA
                        object.
tna.graph               Compute a graph from TNA objects.
tna.gsea1               One-tailed Gene Set Enrichment Analysis (GSEA)
                        over a list of regulons.
tna.gsea2               Two-tailed Gene Set Enrichment Analysis (GSEA)
                        over a list of regulons.
tna.mra                 Master Regulator Analysis (MRA) over a list of
                        regulons.
tna.overlap             Overlap analysis over a list of regulons.
tna.plot.gsea1          Plot enrichment analyses from TNA objects.
tna.plot.gsea2          Plot enrichment analyses from TNA objects.
tna.shadow              shadow analysis over a list of regulons.
tna.synergy             Synergy analysis over a list of regulons.
tni.bootstrap           Inference of transcriptional networks.
tni.conditional         Modulators of transcription factor (TF)
                        activity assessed by conditional mutual
                        information analysis.
tni.dpi.filter          Data Processing Inequality (DPI) filter.
tni.get                 Get information from individual slots in a TNI
                        object.
tni.graph               Compute a graph from TNI objects.
tni.permutation         Inference of transcriptional networks.
tni.preprocess          A preprocessing function for objects of class
                        TNI.
tni2tna.preprocess      A preprocessing function for objects of class
                        TNI.
