'NetSurvProx': Network-Based Survival Analysis via Proximal
Methods
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Documentation for package ‘NetSurvProx’ version 1.0.0
Help Pages
| CreateNetwork | Laplacian Matrix for Prior Biological Knowledge in Network Constraint |
| CvNet | Cross-validated Linear Predictors Approach for 'COXNet' and 'AFTNet' |
| Enrichment | Pathway Enrichment (Over-representation Analysis) |
| LUADdataset | Example Dataset for Network-Based Survival Analysis |
| Metrics | Performance Metrics for Survival Models |
| NetSurvProx | NetSurvProx Complete Routine |
| NetSurvProx_Testing | NetSurvProx Testing Routine |
| NetSurvProx_Training | NetSurvProx Training Routine |
| OptimalPICutoff | Optimal Cutoff for Prognostic Index on Training Set |
| PathwayDashboard | Interactive Pathway Analysis Dashboard |
| PlotCvNet | Plot CV-LP Curve for 'COXNet' and 'AFTNet' |
| ProxGDNet | Proximal Gradient Descent for 'COXNet' and 'AFTNet' |
| RepositoryDisease | Disease-Specific Gene Repository from HumanBase |
| RepositoryTissue | Tissue-Specific Top Edge Network from HumanBase |
| Simulations | Simulate Transcription Factor (TF) Target Gene Networks with Survival Outcomes |
| ValidationPI | Prognostic Index Validation on Testing Set |
| VariableScreening | Variables Screening Methods Based on Prior Knowledge and Marginal Utility |