Man pages for RTN
Reconstruction of transcriptional networks and analysis of master regulators

AVS-classClass '"AVS"': an S4 class for variant set enrichment...
avs.evseAn eQTL/VSE pipeline for variant set enrichment analysis.
avs.getGet information from individual slots in an AVS object.
avs.plot1Plot results from AVS methods, single plots.
avs.plot2Plot results from AVS methods, multiple plots.
avs.preprocess.LD1000gRel20130502A preprocessing function for objects of class AVS.
avs.preprocess.LDHapMapRel27A preprocessing function for objects of class AVS.
avs.vseVariant set enrichment (VSE) analysis.
RTN.dataA pre-processed dataset for the RTN package.
RTN-packageReconstruction and Analysis of Transcriptional Networks.
TNA-classClass '"TNA"': an S4 class for Transcriptional Network...
tna.getGet information from individual slots in a TNA object.
tna.graphCompute a graph from TNA objects.
tna.gsea1One-tailed Gene Set Enrichment Analysis (GSEA) over a list of...
tna.gsea2Two-tailed Gene Set Enrichment Analysis (GSEA) over a list of...
tna.mraMaster Regulator Analysis (MRA) over a list of regulons.
tna.overlapOverlap analysis over a list of regulons.
tna.plot.gsea1Plot enrichment analyses from TNA objects.
tna.plot.gsea2Plot enrichment analyses from TNA objects.
tna.shadowshadow analysis over a list of regulons.
tna.synergySynergy analysis over a list of regulons.
tni2tna.preprocessA preprocessing function for objects of class TNI.
tni.bootstrapInference of consensus transcriptional networks.
TNI-classClass '"TNI"': an S4 class for Transcriptional Network...
tni.conditionalModulators of transcription factor (TF) activity assessed by...
tni.constructorA constructor for objects of class TNI.
TNI.dataA pre-processed TNI for demonstration purposes only.
tni.dpi.filterData Processing Inequality (DPI) filter.
tni.getGet information from individual slots in a TNI object.
tni.graphCompute a graph from TNI objects.
tni.gsea2Two-tailed Gene Set Enrichment Analysis (GSEA) over a list of...
tni.permutationInference of transcriptional networks.
tni.preprocessA preprocessing function for objects of class TNI.
upgradeTNAUpgrade objects of class TNI.
upgradeTNIUpgrade objects of class TNI.
RTN documentation built on Nov. 17, 2017, 1:44 p.m.