Description Usage Arguments Details Value Author(s) See Also Examples

Report a top number of pairs of variables according to either some association measure and/or occurring in a given reference graph.

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`measurementsMatrix` |
matrix containing the measure of association between all pairs of variables. |

`refGraph` |
a reference graph containing the pairs that should be reported
and provided either as an adjacency matrix, a |

`n` |
number of pairs to report, 6 by default, use |

`file` |
file name to dump the pairs information as tab-separated column text. |

`decreasing` |
logical; if TRUE then the measurements are employed to be ordered in decreasing order; if FALSE then in increasing order. |

`pairup.i` |
subset of vertices to pair up with subset |

`pairup.j` |
subset of vertices to pair up with subset |

`annotation` |
name of an annotation package to transform gene identifiers into gene symbols when variables correspond to genes. |

`fcOutput` |
output of |

`fcOutput.na.rm` |
flag set to TRUE when pairs with |

`digits` |
number of decimal digits reported in the values of |

The `measurementsMatrix`

should be symmetric and may have also contain
`NA`

values which will not be taken into account. That is an alternative
way to restricting the variable pairs with the parameters `pairup.i`

and
`pairup.j`

. The same holds for `refGraph`

. One of these two, should
be specified.

The ranking of pairs is invisibly returned.

R. Castelo

`qpGraph`

`qpPrecisionRecall`

`qpFunctionalCoherence`

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