buildAntiProfile {antiProfiles}R Documentation

Create an anti-profile from a AntiProfileStats object

Description

This function creates anti-profile using statistics stored in a AntiProfileStats object

Arguments

stats

an object of class AntiProfileStats as produced by the apStats function

tissueSpec

use tissue-specific regions of normal expression

tissueFilter

use only tissue-specific genes in the anti-profile

sigsize

desired size of signature, if NULL, computed from statCutoff

cutoff

median absolute deviation multiplier used to define normal regions of expression

statCutoff

cutoff used to include probesets in anti-profile

Value

an object of class AntiProfilesSig or AntiProfilesTissueSig depending on the tissueSpec argument

Author(s)

Hector Corrada Bravo hcorrada@gmail.com

Examples

if (require(antiProfilesData)) {
  # create an anti-profile, ignoring tissue-specificity of probesets, with 10 probesets
  data(apColonData)
  colonStats = apStats(exprs(apColonData), pData(apColonData)$Status)
  ap = buildAntiProfile(colonStats, tissueSpec=FALSE, sigsize=10)
}

[Package antiProfiles version 1.24.0 Index]