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

The similarity of two rankings is assessed by computing a weighted distance measure. This function implements weighted absolute- and squared distance, a weighted versions of Spearman's rank correlation coefficient and Kendall's tau. Note that Spearman's rank correlation coefficient is not a distance measure in the classical sense, but can be obtained as transformation of the squared distance.

1 2 | ```
GetStabilityDistance(RR, scheme = c("original", "pairwise"), measure = c("l1", "l2", "spearman", "kendall"),
decay = c("linear", "quadratic", "exponential"), alpha = 1, ...)
``` |

`RR` |
An object of class |

`scheme` |
If |

`measure` |
The measure to be used. |

`decay` |
Argument controlling the weight decay of the weights
of the summands contributing to the stability measure. If |

`alpha` |
s. |

`...` |
Currently unused argument. |

An object of class StabilityDistance

Martin Slawski

Anne-Laure Boulesteix

Jurman, G., Merler, S., Barla, A., Paoli, S., Galea, A., Furlanello, C. (2008).

Algebraic stability indicators for ranked lists in molecular profiling. *Bioinformatics 24, 258-264*

DeConde, R. P., Hawley, S., Falcon, S., Clegg, N., Knudsen, B., Etzioni, R. (2006).

Combining results of microarray experiments: a rank aggregation approach. *Statistical Applications in Genetics and
Molecular Biology 5, 15*

RepeatRanking

1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 | ```
## Load toy gene expression data
data(toydata)
### class labels
yy <- toydata[1,]
### gene expression
xx <- toydata[-1,]
### get ranking
ordT <- RankingTstat(xx, yy, type="unpaired")
### Generate Leave-One-Out
loo <- GenerateFoldMatrix(y = yy, k=1)
### Repeat Ranking with t-statistic
loor_ordT <- RepeatRanking(ordT, loo)
### assess stability
stab_dis_ordT <- GetStabilityDistance(loor_ordT, scheme = "original", measure = "spearman", decay="linear")
### for a short summary
summary(stab_dis_ordT, display = "all")
``` |

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