antiprofilestats-class: Statistics used to build anti-profiles

In antiProfiles: Implementation of gene expression anti-profiles

Description

This class stores statistics required to build anti-profiles. Objects of this class should be built using the apStats function. To build anti-profiles from objects of this class, use the buildAntiProfile function.

Usage

  ## Accessors 
  getProbeStats(object)

Arguments

object

Object of class AntiProfileStats

Accessors

In the following code object is a AntiProfileStats object.

getProbeStats:

Gets probeset statistics. A data.frame with columns

affyid:

Affymetrix probeset id (character)

SD0:

Normal expression standard deviation aggregated over tissue types (numeric)

SD1:

Cancer expression standard deviation aggregated over tumor types (numeric)

stat:

The log2-variance ratio statistic (numeric)

meds0:

Median normal expression aggregated over tissue types (numeric)

mads0:

Median absolute deviation of normal expression aggregate over tissue types (numeric)

Author(s)

Hector Corrada Bravo [e-mail]

See Also

apStats to construct objects of this class, buildAntiProfile to build anti-profiles from objects of this class.

Examples

if (require(antiProfilesData)) {
   data(apColonData)
   colonStats = apStats(exprs(apColonData), pData(apColonData)$Status)
   show(getProbeStats(colonStats))
 }

antiProfiles documentation built on Nov. 8, 2020, 6:43 p.m.