gCMAPWeb (version 1.12.0)

exampleCMAP: Generate example NChannelSets

Description

This function generates NChannelSets from randomly selected gene idenfiers and scores. Scores of the first (simulated) sample will be shifted up by the amount specified by the 'add' parameter for the first 50 genes and down by the same amount for genes 51-100.

Usage

exampleCMAP(universe = "org.Hs.eg.db", idType = "ENTREZID", rows = 1000, cols = 20, seed = 123, add = 3)

Arguments

universe

character, the name of an available annotation package. Default=org.Hs.eg.db

idType

character, a valid identifier type supported by the selected annotation package. Default=ENTREZID

rows

integer, the number of genes to sample. Default=1000

cols

integer, the number of samples to generate. Default=20

seed

numeric, seed for the random number generator. Default=123

add

numeric, score shift for scores in the first sample column. Scores for genes 1-50 will be shifted up, those for genes 51-100 down.

Value

NChannelSet with simulated scores.

Details

This function is mainly intented for testing purposes.

Examples

## generate example NChannelSet with 100 features and 10 columns
## for human EntrezIds
if( require( "org.Hs.eg.db", character.only=TRUE)){
  e <- exampleCMAP( universe="org.Hs.eg.db", rows=100, cols=10)
  dim( e )
  head( featureNames( e ))
  assayDataElementNames( e )
  ## or gene symbols
  s <- exampleCMAP( universe="org.Hs.eg.db", idType="SYMBOL")
  head( featureNames( s ))
  }