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

PROMISE analysis of two genomic sets with multiple phenotypes.

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`exprSet` |
expression set of first genomic data |

`exprSet2` |
expression set of second genomic data |

`geneSet` |
geneSet should be NULL. |

`promise.pattern` |
PROMISE pattern |

`strat.var` |
stratum variable |

`nbperm` |
indicator of fast permuation using negative binomial strategy, taking two valid values: FALSE or TRUE. The default is FALSE. |

`max.ntail` |
number of sucess if nbperm = T. Further permutation will not be performed for gene(s) or gene set(s) which max.ntail permutated statistics are greater or equal to the observed statistics, The default is 100. |

`nperms` |
number of permutation, default = 10,000 |

`seed` |
random seed, default = 13 |

The function performs PROMISE analysis for two set genomic data with a prefined phenotypic pattern. It is intermediate function called by *CCPROMISE*
to perform PROMISE analysis with canonical correlation

The output of the function is a list of length 2. The 2 components are as following:

`generes` |
individual genes' test statistics and p-values for each individual endpoint and PROMISE analysis. |

`setres` |
Gene set level analysis is not implemented with value |

Xueyuan Cao Xueyuan.cao@stjude.org, Stanley Pounds stanley.pounds@stjude.org

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