Description Usage Arguments Value References Examples

View source: R/getJunctionTreePaths.R

Find the shortest paths in the Junction tree designed with the cliques of the graph.

1 | ```
getJunctionTreePaths(graph, root=NULL)
``` |

`graph` |
a |

`root` |
nodes by which rip ordering is performed (as far as possible) on the variables using the maximum cardinality search algorithm. |

list of clique indices representing the shortest paths of the graph.

Martini P, Sales G, Massa MS, Chiogna M, Romualdi C. Along signal paths: an empirical gene set approach exploiting pathway topology. NAR. 2012 Sep.

Massa MS, Chiogna M, Romualdi C. Gene set analysis exploiting the topology of a pathway. BMC System Biol. 2010 Sep 1;4:121.

1 2 3 4 5 | ```
if (require(graphite)) {
kegg <- pathways("hsapiens", "kegg")
graph <- pathwayGraph(convertIdentifiers(kegg$'Chronic myeloid leukemia', "entrez"))
getJunctionTreePaths(graph)
}
``` |

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