AnalysisTreeSet-class: Class AnalysisTreeSet

In xps: Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays

Description

This class provides the link to the ROOT analysis file and the ROOT trees contained therein. It extends class ProcesSet.

Objects from the Class

Objects are currently created using function unifilter.

Slots

fltrset:

Object of class "FilterTreeSet" providing indirect access to the ExprTreeSet used and the UniFilter settings.

scheme:

Object of class "SchemeTreeSet" providing access to ROOT scheme file.

data:

Object of class "data.frame". The data.frame contains the data of the unitest stored in ROOT data trees.

params:

Object of class "list" representing relevant parameters.

setname:

Object of class "character" representing the name to the ROOT file subdirectoy where the ROOT trees are stored, currently ‘UniFilterSet’.

settype:

Object of class "character" describing the type of treeset stored in setname, currently ‘unifilter’.

rootfile:

Object of class "character" representing the name of the ROOT file, including full path.

filedir:

Object of class "character" describing the full path to the system directory where rootfile is stored.

numtrees:

Object of class "numeric" representing the number of ROOT trees stored in subdirectoy setname.

treenames:

Object of class "list" representing the names of the ROOT trees stored in subdirectoy setname.

Extends

Class "ProcesSet", directly. Class "TreeSet", by class "ProcesSet", distance 2.

Methods

filterTreeset

signature(object = "AnalysisTreeSet"): extracts slot fltrset.

getTreeData

signature(object = "AnalysisTreeSet"): exports tree data and returns a data.frame.

validData

signature(object = "AnalysisTreeSet"): extracts data.frame data.

validFilter

signature(object = "AnalysisTreeSet"): extracts data.frame data from fltrset.

volcanoplot

signature(x = "AnalysisTreeSet"): creates a volcano-plot.

Author(s)

Christian Stratowa

See Also

related classes FilterTreeSet.

Examples

showClass("AnalysisTreeSet")

xps documentation built on Nov. 8, 2020, 6 p.m.