GeneSelector (version 2.22.0)

AggregateSimple: Simple aggregation of repeated rankings

Description

All obtained rankings are aggregated by a genewise summary measure.

Usage

AggregateSimple(RR, measure = c("mode", "mean", "trimmed.mean", "median", "quantile"), q=NULL, trim = NULL)

Arguments

RR

An object of class RepeatedRanking

measure

The statistic to be used as basis for the aggregated ranking.

mode

The rank occuring most frequently. If several ranks occur equally often, the lowest one is used.

mean

The mean of the ranks.

trimmed.mean

The trimmed mean of the ranks, i.e. the mean resulting when throwing away the trim*100 percent most extreme observations at both tails.

median

The median of the ranks.

quantile

The q-quantile, 0 <= q="" <="1, of the ranks.

q

Only specified if measure="quantile".

trim

s. trimmed.mean.

Value

AggregatedRanking.

See Also

RepeatRanking, AggregateSVD, AggregatePenalty, AggregateMC

Examples

## Load toy gene expression data
data(toydata)
### class labels
yy <- toydata[1,]
### gene expression
xx <- toydata[-1,]
### run RankingTstat
ordT <- RankingTstat(xx, yy, type="unpaired")
### Generate Leave-one-out Foldmatrix
loo <- GenerateFoldMatrix(y = yy, k=1)
### Get all rankings
loor_ordT <- RepeatRanking(ordT, loo)
### aggregate rankings
agg_simple_ordT <- AggregateSimple(loor_ordT, measure ="mean")
toplist(agg_simple_ordT)