Bootstrap: The Bootstrap class

In IdMappingAnalysis: ID Mapping Analysis

Description

Package: IdMappingAnalysis
Class Bootstrap

Object
~~|
~~+--IdMapBase
~~~~~~~|
~~~~~~~+--Bootstrap

Directly known subclasses:

public static class Bootstrap
extends IdMapBase

The Bootstrap object encapsulates a data frame containing the unique pairs in the first two columns and the correlation results, sd and bias obtained from the bootstrapping procedure in the next 3 columns During the object creation, the bootstrapping procedure is applyied to each row of the experiment set pairs from the CorrData object optionally applying the Fisher transform to the correlation data.

Usage

Bootstrap(corrData=NULL, Fisher=FALSE, R=200, verbose=FALSE, ...)

Arguments

corrData	CorrData object on which the correlation related bootstrapping is performed.
Fisher	If TRUE, the Fisher transform of data is performed during bootstrapping. Default is FALSE.
R	The number of bootstrap replicates. Default is 200.
verbose	if TRUE enables diagnostic messages. Default is FALSE.
...	Not used.

Value

A Bootstrap object encapsulating the data.frame with following columns:

column 1	the first component (primary IDs) of unique pairs. The column name corresponds to the primary key of a source ID Map
column 2	the second component (secondary IDs) of unique pairs. The column name corresponds to the secondary key of a source ID Map
'corr' column	contains the correlation values obtained from bootstrapping
'sd' column	contains the correlation sd values obtained from bootstrapping
'bias' column	contains the correlation bias values obtained from bootstrapping

Fields and Methods

Methods:

	plot	Scatterplot of bootstrapped results: sd vs correlation .

Methods inherited from IdMapBase:
[, aligned, as.data.frame, dim, dimnames, getName, primaryIDs, primaryKey, secondaryKey

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, registerFinalizer, save

Author(s)

Alex Lisovich, Roger Day

Examples

 bootstrap<-Bootstrap(examples$corrData,R=20,verbose=TRUE);
 class(bootstrap);
 bootstrap[1:10,];
 

IdMappingAnalysis documentation built on Oct. 31, 2019, 3:30 a.m.