FirmaModel: The FirmaModel class

Description

Package: aroma.affymetrix Class FirmaModel Object ~~| ~~+--ParametersInterface ~~~~~~~| ~~~~~~~+--Model ~~~~~~~~~~~~| ~~~~~~~~~~~~+--UnitModel ~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~+--FirmaModel Directly known subclasses: public abstract static class FirmaModel extends UnitModel This class represents the FIRMA (Finding Isoforms using RMA) alternative splicing model.

Usage

FirmaModel(rmaPlm=NULL, summaryMethod=c("median", "upperQuartile", "max"),
  operateOn=c("residuals", "weights"), ...)

Arguments

rmaPlm

An @RmaPlm object.

summaryMethod

A character specifying what summarization method should be used.

operateOn

A character specifying what statistic to operate on.

...

Arguments passed to constructor of UnitModel.

Fields and Methods

Methods: rll{ fit Estimates the model parameters. getCdf - getDataSet - getFirmaSet Gets the set of FIRMA results for this model. getName - getPlm - getTags - }

Methods inherited from UnitModel: findUnitsTodo, getAsteriskTags, getFitSingleCellUnitFunction, getParameters

Methods inherited from Model: as.character, fit, getAlias, getAsteriskTags, getDataSet, getFullName, getName, getParameterSet, getPath, getRootPath, getTags, setAlias, setTags

Methods inherited from ParametersInterface: getParameterSets, getParameters, getParametersAsString

Methods inherited from Object: $, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clearLookupCache, clone, detach, equals, extend, finalize, gc, getEnvironment, getFieldModifier, getFieldModifiers, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, objectSize, print, save, asThis