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| Uses of Extendable in gov.nih.nci.mageom.domain |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain | |
|---|---|
interface |
Describable
Abstract class that allows subclasses to inherit the association to Description, for detailed annotations such as Ontology entries and Database references, the association to Audit, for tracking changes, and the association to Security for indicating permissions. |
interface |
Identifiable
An Identifiable class is one that has an unambiguous reference within the scope. |
| Uses of Extendable in gov.nih.nci.mageom.domain.Array |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.Array | |
|---|---|
interface |
Array
The physical substrate along with its features and their annotation |
interface |
ArrayGroup
An array package is a physical platform that contains one or more arrays that are separately addressable (e.g. |
interface |
ArrayManufacture
Describes the process by which arrays are produced. |
interface |
ArrayManufactureDeviation
Stores information of the potential difference between an array design and arrays that have been manufactured using that design (e.g. |
interface |
FeatureDefect
Stores the defect information for a feature. |
interface |
Fiducial
A marking on the surface of the array that can be used to identify the array's origin, the coordinates of which are the fiducial's centroid. |
interface |
ManufactureLIMS
Information on the physical production of arrays within the laboratory. |
interface |
ManufactureLIMSBiomaterial
Stores the location from which a biomaterial was obtained. |
interface |
PositionDelta
The delta the feature was actually printed on the array from the position specified for the feature in the array design. |
interface |
ZoneDefect
Stores the defect information for a zone. |
| Uses of Extendable in gov.nih.nci.mageom.domain.Array.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.Array.impl that implement Extendable | |
|---|---|
class |
ArrayGroupImpl
An array package is a physical platform that contains one or more arrays that are separately addressable (e.g. |
class |
ArrayImpl
The physical substrate along with its features and their annotation |
class |
ArrayManufactureDeviationImpl
Stores information of the potential difference between an array design and arrays that have been manufactured using that design (e.g. |
class |
ArrayManufactureImpl
Describes the process by which arrays are produced. |
class |
FeatureDefectImpl
Stores the defect information for a feature. |
class |
FiducialImpl
A marking on the surface of the array that can be used to identify the array's origin, the coordinates of which are the fiducial's centroid. |
class |
ManufactureLIMSBiomaterialImpl
Stores the location from which a biomaterial was obtained. |
class |
ManufactureLIMSImpl
Information on the physical production of arrays within the laboratory. |
class |
PositionDeltaImpl
The delta the feature was actually printed on the array from the position specified for the feature in the array design. |
class |
ZoneDefectImpl
Stores the defect information for a zone. |
| Uses of Extendable in gov.nih.nci.mageom.domain.ArrayDesign |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.ArrayDesign | |
|---|---|
interface |
ArrayDesign
Describes the design of an gene expression layout. |
interface |
CompositeGroup
Allows specification of the type of Composite Design Element. |
interface |
DesignElementGroup
The DesignElementGroup holds information on either features, reporters, or compositeSequences, particularly that information that is common between all of the DesignElements contained. |
interface |
FeatureGroup
A collection of like features. |
interface |
PhysicalArrayDesign
A design that is expected to be used to manufacture physical arrays. |
interface |
ReporterGroup
Allows specification of the type of Reporter Design Element. |
interface |
Zone
Specifies the location of a zone on an array. |
interface |
ZoneGroup
Specifies a repeating area on an array. |
interface |
ZoneLayout
Specifies the layout of features in a rectangular grid. |
| Uses of Extendable in gov.nih.nci.mageom.domain.ArrayDesign.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.ArrayDesign.impl that implement Extendable | |
|---|---|
class |
ArrayDesignImpl
Describes the design of an gene expression layout. |
class |
CompositeGroupImpl
Allows specification of the type of Composite Design Element. |
class |
DesignElementGroupImpl
The DesignElementGroup holds information on either features, reporters, or compositeSequences, particularly that information that is common between all of the DesignElements contained. |
class |
FeatureGroupImpl
A collection of like features. |
class |
PhysicalArrayDesignImpl
A design that is expected to be used to manufacture physical arrays. |
class |
ReporterGroupImpl
Allows specification of the type of Reporter Design Element. |
class |
ZoneGroupImpl
Specifies a repeating area on an array. |
class |
ZoneImpl
Specifies the location of a zone on an array. |
class |
ZoneLayoutImpl
Specifies the layout of features in a rectangular grid. |
| Uses of Extendable in gov.nih.nci.mageom.domain.AuditAndSecurity |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.AuditAndSecurity | |
|---|---|
interface |
Audit
Tracks information on the contact that creates or modifies an object. |
interface |
Contact
A contact is either a person or an organization. |
interface |
Organization
Organizations are entities like companies, universities, government agencies for which the attributes are self describing. |
interface |
Person
A person for which the attributes are self describing. |
interface |
Security
Permission information for an object as to ownership, write and read permissions. |
interface |
SecurityGroup
Groups contacts together based on their security privileges. |
| Uses of Extendable in gov.nih.nci.mageom.domain.AuditAndSecurity.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.AuditAndSecurity.impl that implement Extendable | |
|---|---|
class |
AuditImpl
Tracks information on the contact that creates or modifies an object. |
class |
ContactImpl
A contact is either a person or an organization. |
class |
OrganizationImpl
Organizations are entities like companies, universities, government agencies for which the attributes are self describing. |
class |
PersonImpl
A person for which the attributes are self describing. |
class |
SecurityGroupImpl
Groups contacts together based on their security privileges. |
class |
SecurityImpl
Permission information for an object as to ownership, write and read permissions. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioAssay |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.BioAssay | |
|---|---|
interface |
BioAssay
An abstract class which represents both physical and computational groupings of arrays and biomaterials. |
interface |
BioAssayCreation
The process by which an array and one or more biomaterials are combined to create a bioAssayCreation. |
interface |
BioAssayTreatment
The event which records the process by which PhysicalBioAssays are processed (typically washing, blocking, etc...). |
interface |
Channel
A channel represents an independent acquisition scheme for the ImageAcquisition event, typically a wavelength. |
interface |
DerivedBioAssay
A BioAssay that is created by the Transformation BioEvent from one or more MeasuredBioAssays or DerivedBioAssays. |
interface |
FeatureExtraction
The process by which data is extracted from an image producing a measuredBioAssayData and a measuredBioAssay. |
interface |
Hybridization
The archetypal bioAssayCreation event, whereby biomaterials are hybridized to an array. |
interface |
Image
An image is created by an imageAcquisition event, typically by scanning the hybridized array (the PhysicalBioAssay). |
interface |
ImageAcquisition
The process by which an image is generated (typically scanning). |
interface |
MeasuredBioAssay
A measured bioAssay is the direct processing of information in a physical bioAssay by the featureExtraction event. |
interface |
PhysicalBioAssay
A bioAssay created by the bioAssayCreation event (e.g. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioAssay.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.BioAssay.impl that implement Extendable | |
|---|---|
class |
BioAssayCreationImpl
The process by which an array and one or more biomaterials are combined to create a bioAssayCreation. |
class |
BioAssayImpl
An abstract class which represents both physical and computational groupings of arrays and biomaterials. |
class |
BioAssayTreatmentImpl
The event which records the process by which PhysicalBioAssays are processed (typically washing, blocking, etc...). |
class |
ChannelImpl
A channel represents an independent acquisition scheme for the ImageAcquisition event, typically a wavelength. |
class |
DerivedBioAssayImpl
A BioAssay that is created by the Transformation BioEvent from one or more MeasuredBioAssays or DerivedBioAssays. |
class |
FeatureExtractionImpl
The process by which data is extracted from an image producing a measuredBioAssayData and a measuredBioAssay. |
class |
HybridizationImpl
The archetypal bioAssayCreation event, whereby biomaterials are hybridized to an array. |
class |
ImageAcquisitionImpl
The process by which an image is generated (typically scanning). |
class |
ImageImpl
An image is created by an imageAcquisition event, typically by scanning the hybridized array (the PhysicalBioAssay). |
class |
MeasuredBioAssayImpl
A measured bioAssay is the direct processing of information in a physical bioAssay by the featureExtraction event. |
class |
PhysicalBioAssayImpl
A bioAssay created by the bioAssayCreation event (e.g. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioAssayData |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.BioAssayData | |
|---|---|
interface |
BioAssayData
Represents the dataset created when the BioAssays are created. |
interface |
BioAssayDatum
A single cell of the quantitation, bioAssay, designElement matrix. |
interface |
BioAssayDimension
An ordered list of bioAssays. |
interface |
BioAssayMap
The BioAssayMap is the description of how source MeasuredBioAssays and/or DerivedBioAssays are manipulated (mathematically) to produce DerivedBioAssays. |
interface |
BioAssayMapping
Container of the mappings of the input BioAssay dimensions to the output BioAssay dimension. |
interface |
BioDataCube
A three-dimensional cube representation of the data. |
interface |
BioDataTuples
A relational, tuple representation of the data. |
interface |
BioDataValues
The actual values for the BioAssayCube. |
interface |
CompositeSequenceDimension
Specialized DesignElementDimension to hold CompositeSequences. |
interface |
DerivedBioAssayData
The output of a transformation event. |
interface |
DesignElementDimension
An ordered list of designElements. |
interface |
DesignElementMap
A DesignElementMap is the description of how source DesignElements are transformed into a target DesignElement. |
interface |
DesignElementMapping
Container of the mappings of the input DesignElement dimensions to the output DesignElement dimension. |
interface |
FeatureDimension
Specialized DesignElementDimension to hold Features. |
interface |
MeasuredBioAssayData
The data associated with the MeasuredBioAssay produced by FeatureExtraction. |
interface |
QuantitationTypeDimension
An ordered list of quantitationTypes. |
interface |
QuantitationTypeMap
A QuantitationTypeMap is the description of how source QuantitationTypes are mathematically transformed into a target QuantitationType. |
interface |
QuantitationTypeMapping
Container of the mappings of the input QuantitationType dimensions to the output QuantitationType dimension. |
interface |
ReporterDimension
Specialized DesignElementDimension to hold Reporters. |
interface |
Transformation
The process by which derivedBioAssays are created from measuredBioAssays and/or derivedBioAssays. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioAssayData.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.BioAssayData.impl that implement Extendable | |
|---|---|
class |
BioAssayDataImpl
Represents the dataset created when the BioAssays are created. |
class |
BioAssayDatumImpl
A single cell of the quantitation, bioAssay, designElement matrix. |
class |
BioAssayDimensionImpl
An ordered list of bioAssays. |
class |
BioAssayMapImpl
The BioAssayMap is the description of how source MeasuredBioAssays and/or DerivedBioAssays are manipulated (mathematically) to produce DerivedBioAssays. |
class |
BioAssayMappingImpl
Container of the mappings of the input BioAssay dimensions to the output BioAssay dimension. |
class |
BioDataCubeImpl
A three-dimensional cube representation of the data. |
class |
BioDataTuplesImpl
A relational, tuple representation of the data. |
class |
BioDataValuesImpl
The actual values for the BioAssayCube. |
class |
CompositeSequenceDimensionImpl
Specialized DesignElementDimension to hold CompositeSequences. |
class |
DerivedBioAssayDataImpl
The output of a transformation event. |
class |
DesignElementDimensionImpl
An ordered list of designElements. |
class |
DesignElementMapImpl
A DesignElementMap is the description of how source DesignElements are transformed into a target DesignElement. |
class |
DesignElementMappingImpl
Container of the mappings of the input DesignElement dimensions to the output DesignElement dimension. |
class |
FeatureDimensionImpl
Specialized DesignElementDimension to hold Features. |
class |
MeasuredBioAssayDataImpl
The data associated with the MeasuredBioAssay produced by FeatureExtraction. |
class |
QuantitationTypeDimensionImpl
An ordered list of quantitationTypes. |
class |
QuantitationTypeMapImpl
A QuantitationTypeMap is the description of how source QuantitationTypes are mathematically transformed into a target QuantitationType. |
class |
QuantitationTypeMappingImpl
Container of the mappings of the input QuantitationType dimensions to the output QuantitationType dimension. |
class |
ReporterDimensionImpl
Specialized DesignElementDimension to hold Reporters. |
class |
TransformationImpl
The process by which derivedBioAssays are created from measuredBioAssays and/or derivedBioAssays. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioEvent |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.BioEvent | |
|---|---|
interface |
BioEvent
An abstract class to capture the concept of an event (either in the laboratory or a computational analysis). |
interface |
Map
A Map is the description of how sources are transformed into a target. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioEvent.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.BioEvent.impl that implement Extendable | |
|---|---|
class |
BioEventImpl
An abstract class to capture the concept of an event (either in the laboratory or a computational analysis). |
class |
MapImpl
A Map is the description of how sources are transformed into a target. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioMaterial |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.BioMaterial | |
|---|---|
interface |
BioMaterial
BioMaterial is an abstract class that represents the important substances such as cells, tissues, DNA, proteins, etc... |
interface |
BioMaterialMeasurement
A BioMaterialMeasurement is a pairing of a source BioMaterial and an amount (Measurement) of that BioMaterial. |
interface |
BioSample
BioSamples are products of treatments that are of interest. |
interface |
BioSource
The BioSource is the original source material before any treatment events. |
interface |
Compound
A Compound can be a simple compound such as SDS (sodium dodecyl sulfate). |
interface |
CompoundMeasurement
A CompoundMeasurement is a pairing of a source Compound and an amount (Measurement) of that Compound. |
interface |
LabeledExtract
LabeledExtracts are special BioSamples that have Compounds which are detectable (these are often fluorescent or reactive moieties). |
interface |
Treatment
The process by which a biomaterial is created (from source biomaterials). |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioMaterial.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.BioMaterial.impl that implement Extendable | |
|---|---|
class |
BioMaterialImpl
BioMaterial is an abstract class that represents the important substances such as cells, tissues, DNA, proteins, etc... |
class |
BioMaterialMeasurementImpl
A BioMaterialMeasurement is a pairing of a source BioMaterial and an amount (Measurement) of that BioMaterial. |
class |
BioSampleImpl
BioSamples are products of treatments that are of interest. |
class |
BioSourceImpl
The BioSource is the original source material before any treatment events. |
class |
CompoundImpl
A Compound can be a simple compound such as SDS (sodium dodecyl sulfate). |
class |
CompoundMeasurementImpl
A CompoundMeasurement is a pairing of a source Compound and an amount (Measurement) of that Compound. |
class |
LabeledExtractImpl
LabeledExtracts are special BioSamples that have Compounds which are detectable (these are often fluorescent or reactive moieties). |
class |
TreatmentImpl
The process by which a biomaterial is created (from source biomaterials). |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioSequence |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.BioSequence | |
|---|---|
interface |
BioSequence
A BioSequence is a representation of a DNA, RNA, or protein sequence. |
interface |
SeqFeature
Represents, in general, what would be a GenBank Feature Table annotation for a sequence. |
interface |
SeqFeatureLocation
The location of the SeqFeature annotation. |
interface |
SequencePosition
Designates the position of the Feature in its BioSequence. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BioSequence.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.BioSequence.impl that implement Extendable | |
|---|---|
class |
BioSequenceImpl
A BioSequence is a representation of a DNA, RNA, or protein sequence. |
class |
SeqFeatureImpl
Represents, in general, what would be a GenBank Feature Table annotation for a sequence. |
class |
SeqFeatureLocationImpl
The location of the SeqFeature annotation. |
class |
SequencePositionImpl
Designates the position of the Feature in its BioSequence. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BQS |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.BQS | |
|---|---|
interface |
BibliographicReference
Attributes for the most common criteria and association with OntologyEntry allows criteria to be specified for searching for a Bibliographic reference. |
| Uses of Extendable in gov.nih.nci.mageom.domain.BQS.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.BQS.impl that implement Extendable | |
|---|---|
class |
BibliographicReferenceImpl
Attributes for the most common criteria and association with OntologyEntry allows criteria to be specified for searching for a Bibliographic reference. |
| Uses of Extendable in gov.nih.nci.mageom.domain.Description |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.Description | |
|---|---|
interface |
Database
An address to a repository. |
interface |
DatabaseEntry
A reference to a record in a database. |
interface |
Description
A free text description of an object. |
interface |
ExternalReference
A reference to the originating source for the object. |
interface |
OntologyEntry
A single entry from an ontology or a controlled vocabulary. |
| Uses of Extendable in gov.nih.nci.mageom.domain.Description.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.Description.impl that implement Extendable | |
|---|---|
class |
DatabaseEntryImpl
A reference to a record in a database. |
class |
DatabaseImpl
An address to a repository. |
class |
DescriptionImpl
A free text description of an object. |
class |
ExternalReferenceImpl
A reference to the originating source for the object. |
class |
OntologyEntryImpl
A single entry from an ontology or a controlled vocabulary. |
| Uses of Extendable in gov.nih.nci.mageom.domain.DesignElement |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.DesignElement | |
|---|---|
interface |
CompositeCompositeMap
A CompositeCompositeMap is the description of how source CompositeSequences are transformed into a target CompositeSequence. |
interface |
CompositePosition
The location in the compositeSequence target's sequence to which a source compositeSequence maps. |
interface |
CompositeSequence
A collection of Reporter or CompositeSequence Design Elements, annotated through the association to BioSequence. |
interface |
DesignElement
An element of an array. |
interface |
Feature
An intended position on an array. |
interface |
FeatureInformation
As part of the map information, allows the association of one or more differences in the BioMaterial on a feature from the BioMaterial of the Reporter. |
interface |
FeatureLocation
Specifies where a feature is located relative to a grid. |
interface |
FeatureReporterMap
A FeatureReporterMap is the description of how source features are transformed into a target reporter. |
interface |
MismatchInformation
Describes how a reporter varies from its ReporterCharacteristics sequence(s) or how a Feature varies from its Reporter sequence. |
interface |
Position
Specifies a position on an array. |
interface |
Reporter
A Design Element that represents some biological material (clone, oligo, etc.) on an array which will report on some biosequence or biosequences. |
interface |
ReporterCompositeMap
A ReporterCompositeMap is the description of how source Reporters are transformed into a target CompositeSequences. |
interface |
ReporterPosition
The location in the composite target's sequence to which a source reporter maps. |
| Uses of Extendable in gov.nih.nci.mageom.domain.DesignElement.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.DesignElement.impl that implement Extendable | |
|---|---|
class |
CompositeCompositeMapImpl
A CompositeCompositeMap is the description of how source CompositeSequences are transformed into a target CompositeSequence. |
class |
CompositePositionImpl
The location in the compositeSequence target's sequence to which a source compositeSequence maps. |
class |
CompositeSequenceImpl
A collection of Reporter or CompositeSequence Design Elements, annotated through the association to BioSequence. |
class |
DesignElementImpl
An element of an array. |
class |
FeatureImpl
An intended position on an array. |
class |
FeatureInformationImpl
As part of the map information, allows the association of one or more differences in the BioMaterial on a feature from the BioMaterial of the Reporter. |
class |
FeatureLocationImpl
Specifies where a feature is located relative to a grid. |
class |
FeatureReporterMapImpl
A FeatureReporterMap is the description of how source features are transformed into a target reporter. |
class |
MismatchInformationImpl
Describes how a reporter varies from its ReporterCharacteristics sequence(s) or how a Feature varies from its Reporter sequence. |
class |
PositionImpl
Specifies a position on an array. |
class |
ReporterCompositeMapImpl
A ReporterCompositeMap is the description of how source Reporters are transformed into a target CompositeSequences. |
class |
ReporterImpl
A Design Element that represents some biological material (clone, oligo, etc.) on an array which will report on some biosequence or biosequences. |
class |
ReporterPositionImpl
The location in the composite target's sequence to which a source reporter maps. |
| Uses of Extendable in gov.nih.nci.mageom.domain.Experiment |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.Experiment | |
|---|---|
interface |
Experiment
The Experiment is the collection of all the BioAssays that are related by the ExperimentDesign. |
interface |
ExperimentalFactor
ExperimentFactors are the dependent variables of an experiment (e.g. |
interface |
ExperimentDesign
The ExperimentDesign is the description and collection of ExperimentalFactors and the hierarchy of BioAssays to which they pertain. |
interface |
FactorValue
The value for a ExperimentalFactor |
| Uses of Extendable in gov.nih.nci.mageom.domain.Experiment.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.Experiment.impl that implement Extendable | |
|---|---|
class |
ExperimentalFactorImpl
ExperimentFactors are the dependent variables of an experiment (e.g. |
class |
ExperimentDesignImpl
The ExperimentDesign is the description and collection of ExperimentalFactors and the hierarchy of BioAssays to which they pertain. |
class |
ExperimentImpl
The Experiment is the collection of all the BioAssays that are related by the ExperimentDesign. |
class |
FactorValueImpl
The value for a ExperimentalFactor |
| Uses of Extendable in gov.nih.nci.mageom.domain.HigherLevelAnalysis |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.HigherLevelAnalysis | |
|---|---|
interface |
BioAssayDataCluster
A mathematical method of higher level analysis whereby BioAssayData are grouped together into nodes. |
interface |
Node
An individual component of a clustering. |
interface |
NodeContents
The contents of a node for any or all of the three Dimensions. |
interface |
NodeValue
A value associated with the Node that can rank it in relation to the other nodes produced by the clustering algorithm. |
| Uses of Extendable in gov.nih.nci.mageom.domain.HigherLevelAnalysis.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.HigherLevelAnalysis.impl that implement Extendable | |
|---|---|
class |
BioAssayDataClusterImpl
A mathematical method of higher level analysis whereby BioAssayData are grouped together into nodes. |
class |
NodeContentsImpl
The contents of a node for any or all of the three Dimensions. |
class |
NodeImpl
An individual component of a clustering. |
class |
NodeValueImpl
A value associated with the Node that can rank it in relation to the other nodes produced by the clustering algorithm. |
| Uses of Extendable in gov.nih.nci.mageom.domain.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.impl that implement Extendable | |
|---|---|
class |
DescribableImpl
Abstract class that allows subclasses to inherit the association to Description, for detailed annotations such as Ontology entries and Database references, the association to Audit, for tracking changes, and the association to Security for indicating permissions. |
class |
ExtendableImpl
Abstract class that specifies for subclasses an association to NameValueTypes. |
class |
IdentifiableImpl
An Identifiable class is one that has an unambiguous reference within the scope. |
| Methods in gov.nih.nci.mageom.domain.impl that return Extendable | |
|---|---|
Extendable[] |
ExtendableImpl.searchExtendables(ExtendableSearchCriteria criteria)
Returns an array of Extendable objects that
satisfy the given ExtendableSearchCriteria. |
| Uses of Extendable in gov.nih.nci.mageom.domain.Measurement |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.Measurement | |
|---|---|
interface |
ConcentrationUnit
Concentration |
interface |
DistanceUnit
Distance |
interface |
MassUnit
Mass |
interface |
Measurement
A Measurement is a quantity with a unit. |
interface |
QuantityUnit
Quantity |
interface |
TemperatureUnit
Temperature |
interface |
TimeUnit
Time |
interface |
Unit
The unit is a strict enumeration of types. |
interface |
VolumeUnit
Volume |
| Uses of Extendable in gov.nih.nci.mageom.domain.Measurement.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.Measurement.impl that implement Extendable | |
|---|---|
class |
ConcentrationUnitImpl
Concentration |
class |
DistanceUnitImpl
Distance |
class |
MassUnitImpl
Mass |
class |
MeasurementImpl
A Measurement is a quantity with a unit. |
class |
QuantityUnitImpl
Quantity |
class |
TemperatureUnitImpl
Temperature |
class |
TimeUnitImpl
Time |
class |
UnitImpl
The unit is a strict enumeration of types. |
class |
VolumeUnitImpl
Volume |
| Uses of Extendable in gov.nih.nci.mageom.domain.Protocol |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.Protocol | |
|---|---|
interface |
Hardware
Hardware represents the hardware used. |
interface |
HardwareApplication
The use of a piece of hardware with the requisite Parameters and ParameterValues. |
interface |
Parameter
A Parameter is a replaceable value in a Parameterizable class. |
interface |
Parameterizable
The Parameterizable interface encapsulates the association of Parameters with ParameterValues. |
interface |
ParameterizableApplication
The interface that is the use of a Parameterizable class. |
interface |
ParameterValue
The value of a Parameter. |
interface |
Protocol
A Protocol is a parameterizable description of a method. |
interface |
ProtocolApplication
The use of a protocol with the requisite Parameters and ParameterValues. |
interface |
Software
Software represents the software used. |
interface |
SoftwareApplication
The use of a piece of software with the requisite Parameters and ParameterValues. |
| Uses of Extendable in gov.nih.nci.mageom.domain.Protocol.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.Protocol.impl that implement Extendable | |
|---|---|
class |
HardwareApplicationImpl
The use of a piece of hardware with the requisite Parameters and ParameterValues. |
class |
HardwareImpl
Hardware represents the hardware used. |
class |
ParameterImpl
A Parameter is a replaceable value in a Parameterizable class. |
class |
ParameterizableApplicationImpl
The interface that is the use of a Parameterizable class. |
class |
ParameterizableImpl
The Parameterizable interface encapsulates the association of Parameters with ParameterValues. |
class |
ParameterValueImpl
The value of a Parameter. |
class |
ProtocolApplicationImpl
The use of a protocol with the requisite Parameters and ParameterValues. |
class |
ProtocolImpl
A Protocol is a parameterizable description of a method. |
class |
SoftwareApplicationImpl
The use of a piece of software with the requisite Parameters and ParameterValues. |
class |
SoftwareImpl
Software represents the software used. |
| Uses of Extendable in gov.nih.nci.mageom.domain.QuantitationType |
|---|
| Subinterfaces of Extendable in gov.nih.nci.mageom.domain.QuantitationType | |
|---|---|
interface |
ConfidenceIndicator
Indication of some measure of confidence for a standard quantitation type. |
interface |
DerivedSignal
A calculated measurement of the intensity of a signal, for example, after a transformation involving normalization and/or replicate DesignElements. |
interface |
Error
Error measurement of a quantitation. |
interface |
ExpectedValue
Indication of what value is expected of the associated standard quantitation type. |
interface |
Failed
Values associated with this QuantitationType indicate a failure of some kind for a particular DesignElement for a BioAssay. |
interface |
MeasuredSignal
Best measure from feature extraction as to the presence and intensity of the signal. |
interface |
PresentAbsent
Indicates relative presence or absence. |
interface |
PValue
Measurement of the accuracy of a quantitation. |
interface |
QuantitationType
A method for calculating a single datum of the matrix (e.g. |
interface |
Ratio
The ratio of two or more signals, typically between two channels. |
interface |
SpecializedQuantitationType
User defined quantitation type. |
interface |
StandardQuantitationType
Superclass for the named quantitation type. |
| Uses of Extendable in gov.nih.nci.mageom.domain.QuantitationType.impl |
|---|
| Classes in gov.nih.nci.mageom.domain.QuantitationType.impl that implement Extendable | |
|---|---|
class |
ConfidenceIndicatorImpl
Indication of some measure of confidence for a standard quantitation type. |
class |
DerivedSignalImpl
A calculated measurement of the intensity of a signal, for example, after a transformation involving normalization and/or replicate DesignElements. |
class |
ErrorImpl
Error measurement of a quantitation. |
class |
ExpectedValueImpl
Indication of what value is expected of the associated standard quantitation type. |
class |
FailedImpl
Values associated with this QuantitationType indicate a failure of some kind for a particular DesignElement for a BioAssay. |
class |
MeasuredSignalImpl
Best measure from feature extraction as to the presence and intensity of the signal. |
class |
PresentAbsentImpl
Indicates relative presence or absence. |
class |
PValueImpl
Measurement of the accuracy of a quantitation. |
class |
QuantitationTypeImpl
A method for calculating a single datum of the matrix (e.g. |
class |
RatioImpl
The ratio of two or more signals, typically between two channels. |
class |
SpecializedQuantitationTypeImpl
User defined quantitation type. |
class |
StandardQuantitationTypeImpl
Superclass for the named quantitation type. |
|
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