R: Calculates scores for a sampled list of indices (=genes)

feature.scores {StabPerf}

R Documentation

Calculates scores for a sampled list of indices (=genes)

Description

Calculates scores (=overlap) for each index (=gene) from a sampled list of indices (=genes).

Usage

feature.scores(features, mode=c("binary", "rank"))

Arguments

`features`	a list containing the vectors with indices, or a list containing nested lists with `indices` and corresponding `scores`
`mode`	`binary` or `rank`

Details

Extracts all the indices that occur in at least one feature-vector, and sums up the corresponding scores from all the samples in features. The scores can be given as an features[[i]]$scores (requires indices in features[[i]]$indices), or are computed when no scores are given (indices in features[[i]] or feature[[i]]$indices). The score for a index is 1 for mode=binary'' or the position in indices/'features' for mode=rank. The value of maxscore is taken from the length of a feature-vector (mode=binary''). Otherwise (mode=rank'') it is summed up from maxscore in the nested list, if given, or the maximum of each scores-vectors, otherwise.

Value

scores list with vectors indices and the corresponding scores in scores, that were calculated. numeric maxscore is the maximal score that could be achieved.

Examples

load("s_1_1.RData")
feature.scores(cp.img$features, mode="binary")

[Package StabPerf version 0.5 Index]