aggregation: Feature Aggregation

In OmicsMarkeR: Classification and Feature Selection for 'Omics' Datasets

Description

Compiles matrix of ranked features via user defined 'metric'

Usage

aggregation(efs, metric, f = NULL)

Arguments

efs	A matrix of selected features
metric	string indicating the type of aggregation. Avialable options are "CLA" (Complete Linear), "EM" (Ensemble Mean), "ES" (Ensemble Stability), and "EE" (Ensemble Exponential)
f	The number of features desired. Default f = NULL

Value

agg	Aggregated list of features

Author(s)

Charles Determan Jr

References

Abeel T., Helleputte T., Van de Peer Y., Dupont P., Saeys Y. (2010) Robust biomarker identification for cancer diagnosis with ensemble feature selection methods. Bioinformatics 26(3) 392-398.

Meinshausen N., Buhlmann P. (2010) Stability selection. J.R. Statist. Soc. B. 72(4) 417-473.

Haury A., Gestraud P., Vert J. (2011) The Influence of Features Selection Methods on Accuracy, Stability, and Interpretability of Molecular Signatures. PLoS ONE 6(12) e28210. doi: 10.1371/journal.pone.0028210.

See Also

CLA, ES, EM, EE

Examples

# test data
ranks <- replicate(5, sample(seq(50), 50))
row.names(ranks) <- paste0("V", seq(50))

aggregation(ranks, "CLA")

OmicsMarkeR documentation built on April 28, 2020, 6:54 p.m.