SNAGEE (version 1.6.0)

toSnageeFormat: Turns an Eset into a list

Description

Turns an Eset into a list usable by SNAGEE.

Usage

toSnageeFormat(data)

Arguments

data

An Eset. If already a list, leaves it as it is.

Details

The function turns an Eset into a list usable by SNAGEE. Gene ID annotations are found using the annotation slot of the Eset, and the related annotation DB. If no annotation DB can be found, gives an error. In addition, features with identical gene IDs are averaged, and the data are medpolished.

See Also

SNAGEE, qualStudy, qualSample

Examples

# Get the list of genes
geneList = getCC()$g;
# Create a random data set
d=list(genes=geneList, data=matrix(rnorm(length(geneList)*50),ncol=50));
# And calculate its quality (it's going to be close to 0)
qualStudy(d, disattenuate=FALSE);