Man pages for pathClass
Classification using biological pathways as prior knowledge
| adjacency.matrix | An adjacency matrix of a random graph |
| as.adjacencyList | Uses a adjacency matrix to create a adjacency list |
| calc.diffusionKernel | Calculation of diffusion kernel matrix |
| crossval | Performs cross-validation with a specified algorithm |
| desummarize.ranks | Desummarize GeneRanks back to the corresponding probesets |
| extractFeatures | Extracts features which have been choosen by the... |
| fit.graph.svm | Implementation of a supervised classification framework... |
| fit.networkBasedSVM | Implementation of the network-based Support Vector Machine... |
| fit.rfe | Recursive Feature Elimination (RFE) |
| fit.rrfe | Reweighted Recursive Feature Elimination (RRFE) |
| getGeneRanks | Calculate GeneRanks as used by RRFE |
| mapping | A mapping of Refseq Protein IDs to probe set IDs for the gene... |
| matchMatrices | Matches the expression data to the adjacency matrix using the... |
| pathClass-package | Classification with SMVs and prior knowledge |
| plot.pathClassResult | Prints the result of one or more cross-validation run(s) |
| predict.graphSVM | Predict Method for Graph-SVM Fits |
| predict.networkBasedSVM | Predict Method for Network-based SVM Fits |
| predict.rfe | Predict Method for RFE Fits |
| predict.rrfe | Predict Method for RRFE Fits |
| read.hprd | Parse the HPRD flat file |
| summarizeProbes | Summarize probe sets |
| x | Example gene expression data |
| y | Example class labels for the gene expression data |
