Description Usage Arguments Value Author(s) See Also Examples

View source: R/signatureSummaryTable.R

A table with as many rows as the number of genes belonging to the signature.

1 | ```
signatureSummaryTable(aSignatureFinder)
``` |

`aSignatureFinder` |
Structure as results from the signatureFinder() function |

A data frame with the following columns

`column no.1` |
genes in the signature |

`column no.2` |
percentage of missing data per gene |

`column no.3` |
importance (if computed) |

`column no.4` |
median level in good prognosis group (if computed) |

`column no.5` |
median level in poor prognosis group (if computed) |

`column no.6` |
mean level in good prognosis group (if computed) |

`column no.7` |
mean level in poor prognosis group (if computed) |

`column no.8` |
absolute difference of the mean levels (if computed) |

`column no.9` |
Welch's test-Value (if computed) |

`column no.10` |
p-value associated to t-value (if computed; see testGE() function) |

Stefano M. Pagnotta and Michele Ceccarelli

`signatureFinder`

,
`importance`

, `testGE`

1 2 3 4 5 6 7 8 9 10 11 12 13 | ```
data(geNSCLC)
geData <- geNSCLC
data(stNSCLC)
stData <- stNSCLC
# set the dimension of the cpu's cluster (use a value different from 2
# depending on the number of cpu avalilable)
aMakeCluster <- makeCluster(2)
signature <- signatureFinder(which(colnames(geData) == "HIF1a"),
cpuCluster = aMakeCluster)
signature <- importance(signature)
signature <- testGE(signature)
signatureTable <- signatureSummaryTable(signature)
print(signatureTable)
``` |

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