Uses of Interface
psidev.psi.mi.jami.datasource.MIDataSource

Packages that use MIDataSource

Package	Description
psidev.psi.mi.jami.crosslink.extension.datasource
psidev.psi.mi.jami.datasource
psidev.psi.mi.jami.factory
psidev.psi.mi.jami.tab.extension.datasource
psidev.psi.mi.jami.xml.model.extension.datasource

Uses of MIDataSource in psidev.psi.mi.jami.crosslink.extension.datasource

Subinterfaces of MIDataSource in psidev.psi.mi.jami.crosslink.extension.datasource

Modifier and Type	Interface	Description
interface	CsvSource<I extends InteractionEvidence>	Interface for Crosslink CSV sources that can parse full CSV files
interface	CsvStreamSource<I extends InteractionEvidence>	Interface for Crosslink CSV datasources that can stream CSV files

Classes in psidev.psi.mi.jami.crosslink.extension.datasource that implement MIDataSource

Modifier and Type	Class	Description
class	AbstractCsvSource<T extends InteractionEvidence>	Abstract class for an InteractionSource coming from a Crosslink CSV file.
class	AbstractCsvStreamSource<T extends InteractionEvidence>	abstract class for Crosslink Csv datasource.
class	CsvBinaryEvidenceSource	CrossLink CVS source of binary interaction evidences
class	CsvBinaryEvidenceStreamSource	CrossLink CVS stream source of binary interaction evidences
class	CsvEvidenceSource	CrossLink CVS source of interaction evidences
class	CsvEvidenceStreamSource	CrossLink CVS stream source of interaction evidences
class	CsvMixedEvidenceSource	This class is a source that can build a mix of n-ary interaction evidences/binary from a Crosslink csv file depending on the bait column to rebuild the original n-ary interaction
class	CsvNaryEvidenceSource	This class is a source that can build a n-ary interaction evidence from a full Crosslink csv file

Uses of MIDataSource in psidev.psi.mi.jami.datasource

Subinterfaces of MIDataSource in psidev.psi.mi.jami.datasource

Modifier and Type	Interface	Description
interface	BinaryInteractionEvidenceSource	A dataSource of binary interaction evidences It gives full access to all the interactions using Iterator or the full collection.
interface	BinaryInteractionEvidenceStream	A Data source of binary interaction evidences giving only a stream of interactions.
interface	BinaryInteractionSource<T extends BinaryInteraction>	A Data source of binary interactions.
interface	BinaryInteractionStream<T extends BinaryInteraction>	A Data source of binary interactions giving only a stream of interactions.
interface	ComplexSource	A Data source of biological complexes.
interface	ComplexStream	A Data source of biological complexes giving only a stream of complexes.
interface	CvTermStream	A CV term data source allows to stream the controlled vocabulary terms of a given dataSource
interface	ExperimentStream	An experiment data source allows to stream the experiments of a given dataSource
interface	InteractionEvidenceSource<T extends InteractionEvidence>	A Data source of interaction evidences.
interface	InteractionEvidenceStream<T extends InteractionEvidence>	A Data source of interaction evidences giving only a stream of interactions.
interface	InteractionSource<T extends Interaction>	A Data source of interactions.
interface	InteractionStream<T extends Interaction>	A Data source of interactions giving only a stream of interactions.
interface	InteractorStream<T extends Interactor>	An interactor data source allows to stream the interactors of a given dataSource
interface	MIFileDataSource	Interface for MIDataSource coming from a file.
interface	ModelledBinaryInteractionSource	A Data source of modelled binary interactions.
interface	ModelledBinaryInteractionStream	A Data source of modelled binary interactions giving only a stream of interactions.
interface	ModelledInteractionSource<T extends ModelledInteraction>	A Data source of modelled interactions.
interface	ModelledInteractionStream<T extends ModelledInteraction>	A Data source of modelled interaction giving only a stream of interactions.
interface	OrganismStream	An organism data source allows to stream the organisms of a given dataSource
interface	PublicationStream	A publication data source allows to stream the publications of a given dataSource

Uses of MIDataSource in psidev.psi.mi.jami.factory

Methods in psidev.psi.mi.jami.factory that return MIDataSource

Modifier and Type	Method	Description
MIDataSource	MIDataSourceFactory.getMIDataSourceWith(Map<String,Object> requiredOptions)	getMIDataSourceWith

Method parameters in psidev.psi.mi.jami.factory with type arguments of type MIDataSource

Modifier and Type	Method	Description
void	MIDataSourceFactory.registerDataSource(Class<? extends MIDataSource> dataSourceClass, Map<String,Object> supportedOptions)	Register a datasource with options in this factory
void	MIDataSourceFactory.removeDataSource(Class<? extends MIDataSource> dataSourceClass)	Remove the dataSource from this factory

Uses of MIDataSource in psidev.psi.mi.jami.tab.extension.datasource

Subinterfaces of MIDataSource in psidev.psi.mi.jami.tab.extension.datasource

Modifier and Type	Interface	Description
interface	MitabSource<I extends Interaction>	Interface for MITAB sources that can parse full MITAB files
interface	MitabStreamSource<I extends Interaction>	Interface for MITAB datasources that can stream MITAB files

Classes in psidev.psi.mi.jami.tab.extension.datasource that implement MIDataSource

Modifier and Type	Class	Description
class	AbstractMitabSource<T extends Interaction,P extends Participant,F extends Feature>	Abstract class for an InteractionSource coming from a MITAB file.
class	AbstractMitabStreamSource<T extends Interaction,P extends Participant,F extends Feature>	abstract class for Mitab datasource.
class	DefaultMitabSource	Abstract class for an InteractionSource coming from a MITAB file.
class	DefaultMitabStreamSource	Generic class for Mitab streaming datasource.
class	LightMitabBinarySource	A mitab datasource that loads very basic binary interactions and ignore experimental details, source, confidence and experimental details.
class	LightMitabBinaryStreamSource	A mitab datasource that loads very basic binary interactions and ignore experimental details, source, confidence and experimental details It only provides an iterator of binary interactions
class	LightMitabSource	A mitab datasource that loads very basic interactions and ignore experimental details, source, confidence and experimental details It will load the full interaction set.
class	LightMitabStreamSource	A mitab datasource that loads very basic interactions and ignore experimental details, source, confidence and experimental details It will only provide an iterator of interactions.
class	MitabBinaryEvidenceSource	A mitab datasource that loads interaction evidences (full experimental details).
class	MitabBinaryEvidenceStreamSource	A mitab datasource that loads interaction evidences (full experimental details) It only provides an iterator of the interactions
class	MitabEvidenceSource	A mitab datasource that loads interaction evidences (full experimental details) It will load the full interaction dataset
class	MitabEvidenceStreamSource	A mitab datasource that loads interaction evidences (full experimental details) It only provides an iterator of the interactions
class	MitabModelledBinarySource	A mitab datasource that loads modelled binary interactions and ignore experimental details.
class	MitabModelledBinaryStreamSource	A mitab datasource that loads modelled binary interactions and ignore experimental details.
class	MitabModelledSource	A mitab datasource that loads modelled interactions and ignore experimental details It will load the full interaction dataset.
class	MitabModelledStreamSource	A mitab datasource that loads modelled interactions and ignore experimental details It only provides an iterator of modelled interactions

Uses of MIDataSource in psidev.psi.mi.jami.xml.model.extension.datasource

Subinterfaces of MIDataSource in psidev.psi.mi.jami.xml.model.extension.datasource

Modifier and Type	Interface	Description
interface	PsiXmlSource<I extends Interaction>	Interface for PSI-MI XML sources that can parse full PSI-MI XML files
interface	PsiXmlStreamSource<I extends Interaction>	Interface for PSI-MI XML datasources that can stream PSI-MI XML files

Classes in psidev.psi.mi.jami.xml.model.extension.datasource that implement MIDataSource

Modifier and Type	Class	Description
class	AbstractPsiXmlBinarySource<T extends Interaction,B extends BinaryInteraction>	Abstract class for Psi-XML binary interaction data source which loads the full interaction dataset
class	AbstractPsiXmlBinaryStream<T extends Interaction,B extends BinaryInteraction>	Abstract class for binary interaction datasources
class	AbstractPsiXmlSource<T extends Interaction>	Abstract class for a PSI-XML datasource that loads the full interaction dataset
class	AbstractPsiXmlStream<T extends Interaction>	Abstract class for psiXml data source
class	DefaultPsiXmlSource	Generic class for PSI-XML full datasource.
class	DefaultPsiXmlStreamSource	Generic class for PSI-XML streaming datasource.
class	LightXmlBinarySource	PSI-XML data source that provides light binary interactions (no experimental details).
class	LightXmlBinaryStreamSource	Psi-XML binary interaction datasource
class	LightXmlSource	PSI-XML data source that provides light interactions (no experimental details).
class	LightXmlStreamSource	Datasource for PSI-xml returning basic interactions
class	XmlBinaryEvidenceSource	PSI-XML data source that provides binary interactions evidence (full experimental details).
class	XmlBinaryEvidenceStreamSource	PsiXml datasource for binaryInteractionEvidence
class	XmlBinarySource	PSI-XML data source that provides binary interactions (mixed of abstract interactions and interaction evidences).
class	XmlBinaryStreamSource	Psi-XML mixed binary interaction datasource
class	XmlComplexSource	PSI-XML data source that provides abstract interactions (ignore full experimental details).
class	XmlComplexStreamSource	Datasource for Psi-XML abstract interactions
class	XmlEvidenceSource	PSI-XML data source that provides interaction evidences (with full experimental details).
class	XmlEvidenceStreamSource	Datasource for Psi-xml interaction evidence
class	XmlModelledBinarySource	PSI-XML data source that provides modelled binary interactions (ignore experimental details).
class	XmlModelledBinaryStreamSource	Psi-xml datasource for modelled binary interactions
class	XmlModelledSource	PSI-XML data source that provides abstract interactions (ignore full experimental details).
class	XmlModelledStreamSource	Datasource for Psi-XML abstract interactions
class	XmlSource	PSI-XML data source that provides interactions (mix of abstract interactions and interaction evidences).
class	XmlStreamSource	Datasource for PSI-xml returning mix of abstract interactions and interaction evidences