simdataISVA {isva}

Simulated data for ISVA

Description

A synthetic data set of 750 features and 50 samples with a binary phenotype and two confounding factors. Relative effect size of confounding factors (CFs) to that of phenotype of interest is 2. For further details please see reference.

Usage

simdataISVA

Format

This synthetic data set is a list object containing the following elements: (i) data is the data matrix (750 features, 50 samples), (ii) pheno is a binary phenotype vector, (iii) factors is a list of length two containing the two binary confounding factors, (iv) deg is the index vector of those truly differentially "expressed" features, (v) degL is a list of index vectors for features truly differentially altered (first element,degL[[1]]=deg) and those features affected by CFs (2nd and 3rd elements).

References

Independent Surrogate Variable Analysis to deconvolve confounding factors in large-scale microarray profiling studies. Teschendorff AE, Zhuang JJ, Widschwendter M. Bioinformatics. 2011 Jun 1;27(11):1496-505.