A model for network-based prioritisation of genes


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Documentation for package ‘netprioR’ version 1.20.0

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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