A model for network-based prioritisation of genes
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Documentation for package ‘netprioR’ version 1.34.0
Help Pages
| netprioR-package | Package: netprioR |
| bandwidth | bandwidth |
| cmn | Class Mass Normalization (CMN) from Zhu et al., 2003 |
| conjugate_gradient | Conjugate Gradient Solver |
| cuthill_mckee | Cuthill McKee (CM) algorithm |
| fit | Fit 'netprioR' model |
| fit-method | Fit 'netprioR' model |
| laplacian | Graph Laplacian |
| learn | Fit netprioR model |
| netprioR | netprioR |
| netprioR-class | netprioR |
| netprioR-method | netprioR |
| norm_kern | Normalise kernel |
| plot.netprioR | Plot method for 'netprioR' objects |
| ranks | Retrieve ranked prioritisation list |
| ranks-method | Retrieve ranked prioritisation list |
| ROC | Compute ROC curve from netprioR model and true labels |
| ROC-method | Compute ROC curve from netprioR model and true labels |
| simulate_labels | Simulate labels |
| simulate_network_random | Simulate random networks with predefined number of members for each of the two groups and the number of neighbours for each node |
| simulate_network_scalefree | Simulate scalefree networks |
| simulate_phenotype | Simulate phenotypes correlated to labels pivoted into two groups |
| simulation | Example data: Simulated networks, phenotypes and labels for N = 1000 genes |
| weights | Retrieve network weights |
| weights-method | Retrieve network weights |