A B C D E F G H I L M N P R S T U V W X

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undirectedCopy() - Method in class procope.data.networks.ProteinNetwork

Create an explicitly undirected copy of the network.

unsetRegularExpression() - Static method in class procope.tools.namemapping.ProteinManager

Do not use regular expression parsing for the following incoming text identifiers

UseCase1 - Class in procope.examples

This sample use case of the ProCope Java API demonstrates the basic process of complex set predicition.

UseCase1() - Constructor for class procope.examples.UseCase1

UseCase2 - Class in procope.examples

This example code demonstrates different functions for protein networks.

UseCase2() - Constructor for class procope.examples.UseCase2

UseCase3 - Class in procope.examples

UseCase3() - Constructor for class procope.examples.UseCase3

UseCase4 - Class in procope.examples

This sample code demonstrates how to integrate the information of different datasets into a single Petri net in ProCope.

UseCase4() - Constructor for class procope.examples.UseCase4

UserClassSpecException - Exception in procope.tools.userclasses

Thrown if a user scores calculator or clusterer could not no be loaded from the respective XML file due to specification errors (e.g.

UserClassSpecException() - Constructor for exception procope.tools.userclasses.UserClassSpecException

Creates a new UserClassSpecException

UserClassSpecException(String) - Constructor for exception procope.tools.userclasses.UserClassSpecException

Creates a new UserClassSpecException with the given message

UserClusterer - Class in procope.tools.userclasses

Represents a clusterer defined by the user.

UserDataType - Enum in procope.tools.userclasses

Data types for the parameters of user-defined classes

UserParameter - Class in procope.tools.userclasses

Represents a single parameter of a the constructor of a user-defined class.

UserParameter(String, String, UserDataType) - Constructor for class procope.tools.userclasses.UserParameter

Creates a new user parameter

UserScoresCalculator - Class in procope.tools.userclasses

Represents a scores calculator defined by the user.

UserScoresCalculator(String, String, boolean, List<UserParameter>) - Constructor for class procope.tools.userclasses.UserScoresCalculator

Creates a new user scores calculator.