JointIdMap: The Joint ID Map class

In IdMappingAnalysis: ID Mapping Analysis

Description

Package: IdMappingAnalysis
Class JointIdMap

Object
~~|
~~+--IdMapBase
~~~~~~~|
~~~~~~~+--JointIdMap

Directly known subclasses:

public static class JointIdMap
extends IdMapBase

JointIdMap is an object encapsulating a data.frame containing the primary ID set in a first column while the rest of columns containing the sets of secondary IDs, each column corresponding to a particular Id Map, keeping all Id Maps properly aligned

Usage

JointIdMap(idMapList=list(), primaryIDs=NULL, name="", verbose=FALSE, ...)

Arguments

idMapList	The list of ID Maps on which the JointData is constructed.
primaryIDs	The optional character vector of primary IDs on which an additional intersection and reordering are performed.
name	The optional name of a given JointIdMap object. Default is ”
verbose	if TRUE enables diagnostic messages. Default is @FASLE.
...	Not used

Fields and Methods

Methods:

	as.data.frame	Retrieve a data frame encapsulated within the given JointIdMap object.
	diffCounts.plot	Interactive wrapper for IdMapDiffCounts$plot.
	ecdf.plot	Interactive wrapper for IdMapCounts$plot.
	getCounts	Create an IdMapCounts object.
	getDiff	Create an IdMapDiff object.
	getIdMapList	Create an Id Map list from a JointIdMap object.
	getMapNames	Get the names of IdMap objects encapsulated within the given JointIdMap object.
	getMatchInfo	Get match table(s) for a given set of primary IDs.
	getUnionIdMap	Create a union IdMap.

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)

Roger Day,Alex Lisovich

Examples

 jointIdMap<-JointIdMap(examples$identDfList);

 jointIdMap$primaryKey();
 jointIdMap$secondaryKey();

 jointIdMap[1:10,];
 

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