mmcad {knorm}R Documentation

Multiple Microarray Example Dataset - A simulated dataset example

Description

This is a simple simulated dataset of gene expression values for 100 genes (or probes) and 30 arrays, with 3 replicates for each array. Values are generated from a multivariate matrix normal distribution with a specified mean matrix, covariance matrices and other (nuisance) parameters (see Teng et al., 2007 for more details).

Usage

mmcad

Format

Data is represented in a matrix where rows represent arrays and columns represent genes. Values from replicated arrays are placed in consecutive rows.

References

Teng, S.L., Huang, H., and Zhou, X. Jasmine. (2008), "A statistical framework to infer functional gene relationships from biologically interrelated microarray experiments".

Examples

#Importing simulated Multiple Microarray data.
#For more information on data set imported, look at help file for mmcd
#for futher information.
data(mmcad)

#Creating vector fo the number of replicates for each experiment.  There
#will be three replications for each experiment in the mmcd data.
repli=rep(3,30)

results <- knorm(mmcad, 25, 0.01, 1e-10, 1e-10, 2, length(repli),ncol(mmcad),repli)
a_cor_est <- results$a_cor_est
g_cor_est <- results$g_cor_est
 

[Package knorm version 1.0 Index]