| predictionet-package | Inference for predictive networks designed for (but not limited to) genomic data |
| adj.get.hops | Function to identify all children of a parent |
| adj.remove.cycles | Function to remove cycles that may be present in a directed graph represented by an adjacency matrix |
| annot.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by the expression project for oncology (expO). |
| annot2.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by Jorissen and colleagues in 2009. |
| data.discretize | Function to discretize data based on user specified cutoffs |
| data.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by the expression project for oncology (expO). |
| data2.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by Jorissen and colleagues in 2009. |
| demo.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by the expression project for oncology (expO). |
| demo2.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by Jorissen and colleagues in 2009. |
| eval.network | Function computing the f1-score, comparing an inferred topology with a given topology |
| expO.colon.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by the expression project for oncology (expO). |
| jorissen.colon.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by Jorissen and colleagues in 2009. |
| mcc | Function to compute the Matthews Correlation Coefficient (MCC) in a classification framework |
| net2pred | Function fitting a regression model for each gene in the data |
| netinf | Function performing network inference by combining priors and genomic data |
| netinf.cv | Function performing network inference by combining priors and genomic data |
| netinf.predict | Function to make prediction of a node values given its parents using an inferred network |
| netinf2gml | Function to create an 'igraph' object and export a network to a GML readable by Cytoscape |
| pred.score | Function computing performance of prediction; methods include r2, nrmse and mcc |
| predictionet | Inference for predictive networks designed for (but not limited to) genomic data |
| predictionet.press.statistic | Function computing the press statistic for all target variables in topology |
| predictionet.stability.cv | Function inferring networks in cross-validation |
| priors.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by the expression project for oncology (expO). |
| priors2.ras | Gene expression, annotations, clinical data and priors for the colon cancer tumors collected by Jorissen and colleagues in 2009. |