Uses of Interface
org.bridgedb.IDMapper

Packages that use IDMapper

Package	Description
org.bridgedb	BridgeDb is a java library intended for dealing with identifiers for biological entities such as genes, proteins, metabolites.
org.bridgedb.file	Driver and helper classes for using simple files as an identifier mapping service.
org.bridgedb.impl
org.bridgedb.webservice

Uses of IDMapper in org.bridgedb

Classes in org.bridgedb that implement IDMapper

Modifier and Type	Class and Description
class	AbstractIDMapper Contains default implementation of some IDMapper methods.
class	IDMapperStack combines multiple IDMapper's in a stack.

Methods in org.bridgedb that return IDMapper

Modifier and Type	Method and Description
IDMapper	IDMapperStack.addIDMapper(String connectionString) Create a fresh IDMapper from a connectionString and add it to the stack.
IDMapper	Driver.connect(String locationString) Never call this method directly, use BridgeDb.connect(java.lang.String) instead.
static IDMapper	BridgeDb.connect(String connectionString) Finds the correct implementation of the IDMapper interface and instantiates it.
IDMapper	IDMapperStack.getIDMapperAt(int index)

Methods in org.bridgedb that return types with arguments of type IDMapper

Modifier and Type	Method and Description
List<IDMapper>	IDMapperStack.getMappers() get all mappers

Methods in org.bridgedb with parameters of type IDMapper

Modifier and Type	Method and Description
void	IDMapperStack.addIDMapper(IDMapper idMapper) Add an existing IDMapper to the stack.
void	IDMapperStack.removeIDMapper(IDMapper idMapper) Remove an idMapper from the stack.

Uses of IDMapper in org.bridgedb.file

Classes in org.bridgedb.file that implement IDMapper

Modifier and Type	Class and Description
class	IDMapperFile Interface for ID mapping from files.
class	IDMapperText Class for mapping ID from delimited text file.

Uses of IDMapper in org.bridgedb.impl

Methods in org.bridgedb.impl with parameters of type IDMapper

Modifier and Type	Method and Description
static Map<Xref,Set<Xref>>	InternalUtils.mapMultiFromSingle(IDMapper mapper, Collection<Xref> srcXrefs, DataSource... tgt) call the "single" mapID (Xref, ...) multiple times to perform mapping of a Set.
static Set<Xref>	InternalUtils.mapSingleFromMulti(IDMapper mapper, Xref src, DataSource... tgt) call the "multi" mapID (Set, ...) using a Set with one item to perform mapping of a single ID.

Constructor parameters in org.bridgedb.impl with type arguments of type IDMapper

Constructor and Description
TransitiveGraph(List<IDMapper> gdbs) Constructor: immediately starts calculating paths.

Uses of IDMapper in org.bridgedb.webservice

Classes in org.bridgedb.webservice that implement IDMapper

Modifier and Type	Class and Description
class	IDMapperWebservice