# Survival analysis using transcriptional networks inferred by the RTN package

## Documentation for package ‘RTNsurvival’ version 1.12.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

RTNsurvival-package | Performs survival analysis using transcriptional networks inferred by the RTN package.
hclust_semisupervised | Semi-supervised hierarchical clustering
RTNsurvival | Performs survival analysis using transcriptional networks inferred by the RTN package.
survival.data | A pre-processed dataset for demonstration purposes only.
tni2tnsPreprocess | Preprocessing of TNS class objects
tni2tnsPreprocess-method | Preprocessing of TNS class objects
TNS | TNS: An S4 class for survival analysis using transcriptional networks inferred by the RTN package.
TNS-class | TNS: An S4 class for survival analysis using transcriptional networks inferred by the RTN package.
tnsAREA3 | Compute regulon activity by calling aREA (analytic Rank-based Enrichment Analysis) algorithm
tnsAREA3-method | Compute regulon activity by calling aREA (analytic Rank-based Enrichment Analysis) algorithm
tnsCox | Cox regression analysis for TNS class objects
tnsCox-method | Cox regression analysis for TNS class objects
tnsCoxInteraction | Cox regression analysis for dual regulons
tnsCoxInteraction-method | Cox regression analysis for dual regulons
tnsGet | Get information from slots in a TNS object
tnsGet-method | Get information from slots in a TNS object
tnsGSEA2 | Compute regulon activity using 2-tailed Gene Set Enrichment Analysis
tnsGSEA2-method | Compute regulon activity using 2-tailed Gene Set Enrichment Analysis
tnsInteraction | Survival analysis for dual regulons
tnsInteraction-method | Survival analysis for dual regulons
tnsKM | Kaplan-Meier analysis for TNS class objects
tnsKM-method | Kaplan-Meier analysis for TNS class objects
tnsKmInteraction | Kaplan-Meier analysis for dual regulons
tnsKmInteraction-method | Kaplan-Meier analysis for dual regulons
tnsPlotCovariates | Plot regulon activity and categorical covariates
tnsPlotCovariates-method | Plot regulon activity and categorical covariates
tnsPlotCox | Cox plots for TNS class objects
tnsPlotCox-method | Cox plots for TNS class objects
tnsPlotCoxInteraction | Plot results from Cox regression analysis for dual regulons
tnsPlotCoxInteraction-method | Plot results from Cox regression analysis for dual regulons
tnsPlotGSEA2 | Plot 2-tailed GSEA for a sample from a TNS
tnsPlotGSEA2-method | Plot 2-tailed GSEA for a sample from a TNS
tnsPlotKM | Kaplan-Meier plots for TNS class objects
tnsPlotKM-method | Kaplan-Meier plots for TNS class objects
tnsPlotKmInteraction | Plot results from Kaplan-Meier analysis for dual regulons
tnsPlotKmInteraction-method | Plot results from Kaplan-Meier analysis for dual regulons
tnsPlotSRE | Plot Subgroup Regulon Enrichment for TNS-class objects
tnsPlotSRE-method | Plot Subgroup Regulon Enrichment for TNS-class objects
tnsSRD | Subgroup Regulon Difference for TNS-class objects
tnsSRD-method | Subgroup Regulon Difference for TNS-class objects
tnsSRE | Subgroup Regulon Enrichment for TNS-class objects
tnsSRE-method | Subgroup Regulon Enrichment for TNS-class objects
tnsStratification | Sample stratification for a TNS object