Man pages for sysbiomed/glmSparseNet
Network Centrality Metrics for Elastic-Net Regularized Models

buildLambdaAuxiliary function to generate suitable lambda parameters
buildStringNetworkBuild gene network from peptide ids
cv.glmDegreeGLMNET cross-validation model penalizing nodes with small...
cv.glmHubGLMNET cross-validation model penalizing nodes with small...
cv.glmOrphanGLMNET cross-validation model penalizing nodes with high...
cv.glmSparseNetCalculate cross validating GLM model with network-based...
degreeCorCalculate the degree of the correlation network based on...
degreeCovCalculate the degree of the covariance network based on xdata
degreeSparsebnCalculate degree of correlation matrix
dot-calcPenaltyCalculate penalty based on data
dot-degreeGenericGeneric function to calculate degree based on data
dot-glmSparseNetPrivateCalculate GLM model with network-based regularization
dot-networkGenericParallelCalculate the upper triu of the matrix
dot-networkWorkerWorker to calculate edge weight for each pair of ix.i node...
ensemblGeneNamesRetrieve ensembl gene names from biomaRt
geneNamesRetrieve gene names from biomaRt
glmDegreeGLMNET model penalizing nodes with small degree
glmHubGLMNET model penalizing nodes with small degree
glmOrphanGLMNET model penalizing nodes with high degree
glmSparseNetCalculate GLM model with network-based regularization
hallmarksRetrieve hallmarks of cancer count for genes
heuristicScaleHeuristic function to use in high dimensions
hubHeuristicHeuristic function to penalize nodes with low degree
networkCorParallelCalculates the correlation network
networkCovParallelCalculates the covariance network
networkOptionsSetup network options
orphanHeuristicHeuristic function to penalize nodes with high degree
protein2EnsemblGeneNamesRetrieve ensembl gene ids from proteins
separate2GroupsCoxSeparate data in High and Low risk groups (based on Cox...
stringDBhomoSapiensDownload protein-protein interactions from STRING DB
string.network.700.cacheCache of protein-protein network, as it takes some time to...
sysbiomed/glmSparseNet documentation built on Oct. 19, 2018, 2:22 a.m.