Uses of Package
ambit2.base.data

Packages that use ambit2.base.data

Package	Description
ambit2.base.data	Base data structures; no chemistry.
ambit2.base.data.study	Detailed description of experimental data, linked to substances
ambit2.base.data.substance	Chemical substances, with complex composition (including nanomaterials)
ambit2.base.exceptions
ambit2.base.interfaces	Format independent IO utilities
ambit2.base.processors.search
ambit2.base.relation.composition	Classes to describe chemical composition
ambit2.base.ro	Ro did not begin with attempting to rival or supplant any other language whatever, either natural or artificial, nor was it suggested by any of them.
ambit2.chebi
ambit2.core.data
ambit2.core.data.model
ambit2.core.io	Input output support.
ambit2.core.io.bcf
ambit2.core.io.dx
ambit2.core.io.json
ambit2.core.io.pdb
ambit2.core.io.study
ambit2.core.processors.quality
ambit2.core.processors.structure
ambit2.core.processors.structure.key
ambit2.db
ambit2.db.chart
ambit2.db.chemrelation
ambit2.db.facets.propertyvalue
ambit2.db.processors
ambit2.db.processors.quality
ambit2.db.readers
ambit2.db.reporters
ambit2.db.reporters.xlsx
ambit2.db.results
ambit2.db.search
ambit2.db.search.property
ambit2.db.search.qlabel
ambit2.db.search.structure
ambit2.db.search.structure.pairwise
ambit2.db.simiparity.space
ambit2.db.substance
ambit2.db.substance.ids
ambit2.db.substance.processor
ambit2.db.substance.properties
ambit2.db.substance.relation
ambit2.db.substance.study
ambit2.db.substance.study.facet
ambit2.db.update.bookmark
ambit2.db.update.bundle
ambit2.db.update.bundle.chemicals
ambit2.db.update.bundle.endpoints
ambit2.db.update.bundle.substance
ambit2.db.update.dataset
ambit2.db.update.dictionary
ambit2.db.update.fpae
ambit2.db.update.model
ambit2.db.update.property
ambit2.db.update.propertyannotations
ambit2.db.update.qlabel
ambit2.db.update.qlabel.smarts
ambit2.db.update.queryfolder
ambit2.db.update.reference
ambit2.db.update.storedquery
ambit2.db.update.structure
ambit2.dbui
ambit2.dbui.dictionary
ambit2.descriptors
ambit2.descriptors.processors
ambit2.export.isa.json
ambit2.export.isa.v1_0
ambit2.ml.io
ambit2.namestructure
ambit2.pubchem
ambit2.pubchem.rest
ambit2.reactions.reactor
ambit2.rest.dataset
ambit2.rest.model.builder
ambit2.rest.model.predictor
ambit2.rest.model.task
ambit2.rest.property
ambit2.rest.rdf
ambit2.rest.rdf.sparql
ambit2.rest.substance
ambit2.rules.json
ambit2.search
ambit2.smarts.processors
ambit2.tautomers.processor
ambit2.ui
ambit2.ui.editors
ambit2.ui.table
ambit2.vega

Classes in ambit2.base.data used by ambit2.base.data

Class and Description
AbstractDataset._props
AbstractLabel
AmbitBean
AmbitUser Contains all information about an AMBIT database user.
AmbitUser.USER_TYPE
Bookmark._fields
Bookmark.ResourceType
ChEMBLProperties.ChEMBL_Class
ChEMBLProperties.ChEMBL_Property
ClassHolder A place holder for class name and description, in order to allow display of light list of objects, instantiated on demand only.
ConsensusLabel.CONSENSUS_LABELS
ILiteratureEntry
ILiteratureEntry._type
ISelectableRecords.SELECTION_MODE
ISourceDataset
ISourceDataset.fields
ISourceDataset.license
LiteratureEntry A Literature entry: title, URL
Profile A set of properties, defining a (e.g.
Property
Property.IO_QUESTION
PropertyAnnotations
PropertyStats
QLabel.QUALITY
Range
SourceDataset A dataset
StructureRecord
SubstanceRecord Same as the parent class, but with related structures
SubstanceRecord.jsonSubstance
Template Templates are just a (meaningful) set of properties
TypedListModel

Classes in ambit2.base.data used by ambit2.base.data.study

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.base.data.substance

Class and Description
ILiteratureEntry
ISourceDataset
Property

Classes in ambit2.base.data used by ambit2.base.exceptions

Class and Description
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.base.interfaces

Class and Description
ILiteratureEntry
Property

Classes in ambit2.base.data used by ambit2.base.processors.search

Class and Description
Property
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.base.relation.composition

Class and Description
ILiteratureEntry
Property
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.base.ro

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.chebi

Class and Description
Property
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.core.data

Class and Description
Property

Classes in ambit2.base.data used by ambit2.core.data.model

Class and Description
PredictedVarsTemplate
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.core.io

Class and Description
Dictionary encapsulates pseudo ontology , defined in template and dictionary tables
ILiteratureEntry
LiteratureEntry A Literature entry: title, URL
Profile A set of properties, defining a (e.g.
Property
StructureRecord
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.core.io.bcf

Class and Description
LiteratureEntry A Literature entry: title, URL

Classes in ambit2.base.data used by ambit2.core.io.dx

Class and Description
ILiteratureEntry
Property
PropertyAnnotations

Classes in ambit2.base.data used by ambit2.core.io.json

Class and Description
ILiteratureEntry
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.core.io.pdb

Class and Description
StructureRecord

Classes in ambit2.base.data used by ambit2.core.io.study

Class and Description
ILiteratureEntry
Property
PropertyAnnotations
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.core.processors.quality

Class and Description
AmbitUser Contains all information about an AMBIT database user.
QLabel Quality label Q(experts) = (100*a+100*b +1) / (100*d + 10*c+1) 10 experts max labels OK,ProbablyOK,Unknown,ProbablyERROR,ERROR 1)automatic verification -> assigns OK, ? , Not OK 2)Expert verification (up to 10 experts) - assigns (a)OK(expert), (b) Almost OK (expert), (c) Almost Not OK (expert), (d) Not OK (expert)

Classes in ambit2.base.data used by ambit2.core.processors.structure

Class and Description
Property

Classes in ambit2.base.data used by ambit2.core.processors.structure.key

Class and Description
Property

Classes in ambit2.base.data used by ambit2.db

Class and Description
ISourceDataset
StructureRecord

Classes in ambit2.base.data used by ambit2.db.chart

Class and Description
ISourceDataset
Property
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.db.chemrelation

Class and Description
ISourceDataset

Classes in ambit2.base.data used by ambit2.db.facets.propertyvalue

Class and Description
Property
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.db.processors

Class and Description
Dictionary encapsulates pseudo ontology , defined in template and dictionary tables
ILiteratureEntry
LiteratureEntry A Literature entry: title, URL
Profile A set of properties, defining a (e.g.
Property
SourceDataset A dataset
StringBean
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.db.processors.quality

Class and Description
Property

Classes in ambit2.base.data used by ambit2.db.readers

Class and Description
Profile A set of properties, defining a (e.g.
Property
SourceDataset A dataset
StructureRecord
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.db.reporters

Class and Description
Profile A set of properties, defining a (e.g.
Property
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.db.reporters.xlsx

Class and Description
Profile A set of properties, defining a (e.g.
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.db.results

Class and Description
IFilteredColumns
ISelectableRecords
ISelectableRecords.SELECTION_MODE
ISortableColumns
Profile A set of properties, defining a (e.g.
Property
StructureRecord
TypedListModel

Classes in ambit2.base.data used by ambit2.db.search

Class and Description
AmbitUser Contains all information about an AMBIT database user.
Dictionary encapsulates pseudo ontology , defined in template and dictionary tables
ISourceDataset
SourceDataset A dataset
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.db.search.property

Class and Description
Dictionary encapsulates pseudo ontology , defined in template and dictionary tables
Profile A set of properties, defining a (e.g.
Property
PropertyAnnotation Additional triples for Property, or opentox:Feature
PropertyStats
PropertyTemplateStats
Range

Classes in ambit2.base.data used by ambit2.db.search.qlabel

Class and Description
AmbitUser Contains all information about an AMBIT database user.
QLabel Quality label Q(experts) = (100*a+100*b +1) / (100*d + 10*c+1) 10 experts max labels OK,ProbablyOK,Unknown,ProbablyERROR,ERROR 1)automatic verification -> assigns OK, ? , Not OK 2)Expert verification (up to 10 experts) - assigns (a)OK(expert), (b) Almost OK (expert), (c) Almost Not OK (expert), (d) Not OK (expert)

Classes in ambit2.base.data used by ambit2.db.search.structure

Class and Description
AmbitUser Contains all information about an AMBIT database user.
ClassHolder A place holder for class name and description, in order to allow display of light list of objects, instantiated on demand only.
ConsensusLabel.CONSENSUS_LABELS
Profile A set of properties, defining a (e.g.
Property
PropertyTemplateStats
QLabel Quality label Q(experts) = (100*a+100*b +1) / (100*d + 10*c+1) 10 experts max labels OK,ProbablyOK,Unknown,ProbablyERROR,ERROR 1)automatic verification -> assigns OK, ? , Not OK 2)Expert verification (up to 10 experts) - assigns (a)OK(expert), (b) Almost OK (expert), (c) Almost Not OK (expert), (d) Not OK (expert)
QLabel.QUALITY
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.db.search.structure.pairwise

Class and Description
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.db.simiparity.space

Class and Description
ISourceDataset
Property
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.db.substance

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.substance.ids

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.substance.processor

Class and Description
SourceDataset A dataset
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.substance.properties

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.substance.relation

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.substance.study

Class and Description
Property
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.substance.study.facet

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.update.bookmark

Class and Description
Bookmark http://www.w3.org/2003/07/Annotea/BookmarkSchema-20030707

Classes in ambit2.base.data used by ambit2.db.update.bundle

Class and Description
LiteratureEntry A Literature entry: title, URL

Classes in ambit2.base.data used by ambit2.db.update.bundle.chemicals

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.update.bundle.endpoints

Class and Description
Property

Classes in ambit2.base.data used by ambit2.db.update.bundle.substance

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.db.update.dataset

Class and Description
ISourceDataset
LiteratureEntry A Literature entry: title, URL
Property
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.db.update.dictionary

Class and Description
Dictionary encapsulates pseudo ontology , defined in template and dictionary tables
Property
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.db.update.fpae

Class and Description
Property

Classes in ambit2.base.data used by ambit2.db.update.model

Class and Description
Dictionary encapsulates pseudo ontology , defined in template and dictionary tables
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.db.update.property

Class and Description
Property

Classes in ambit2.base.data used by ambit2.db.update.propertyannotations

Class and Description
PropertyAnnotation Additional triples for Property, or opentox:Feature

Classes in ambit2.base.data used by ambit2.db.update.qlabel

Class and Description
Property
QLabel Quality label Q(experts) = (100*a+100*b +1) / (100*d + 10*c+1) 10 experts max labels OK,ProbablyOK,Unknown,ProbablyERROR,ERROR 1)automatic verification -> assigns OK, ? , Not OK 2)Expert verification (up to 10 experts) - assigns (a)OK(expert), (b) Almost OK (expert), (c) Almost Not OK (expert), (d) Not OK (expert)

Classes in ambit2.base.data used by ambit2.db.update.qlabel.smarts

Class and Description
Property

Classes in ambit2.base.data used by ambit2.db.update.queryfolder

Class and Description
AmbitUser Contains all information about an AMBIT database user.

Classes in ambit2.base.data used by ambit2.db.update.reference

Class and Description
ILiteratureEntry

Classes in ambit2.base.data used by ambit2.db.update.storedquery

Class and Description
AmbitUser Contains all information about an AMBIT database user.
ISourceDataset
Range

Classes in ambit2.base.data used by ambit2.db.update.structure

Class and Description
Property
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.dbui

Class and Description
Profile A set of properties, defining a (e.g.
Property
PropertyStats
SourceDataset A dataset

Classes in ambit2.base.data used by ambit2.dbui.dictionary

Class and Description
Dictionary encapsulates pseudo ontology , defined in template and dictionary tables
Profile A set of properties, defining a (e.g.
Property

Classes in ambit2.base.data used by ambit2.descriptors

Class and Description
AmbitBean

Classes in ambit2.base.data used by ambit2.descriptors.processors

Class and Description
Profile A set of properties, defining a (e.g.
Property

Classes in ambit2.base.data used by ambit2.export.isa.json

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.export.isa.v1_0

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.ml.io

Class and Description
SubstanceRecord Same as the parent class, but with related structures
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.namestructure

Class and Description
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.pubchem

Class and Description
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.pubchem.rest

Class and Description
Property
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.reactions.reactor

Class and Description
StructureRecord

Classes in ambit2.base.data used by ambit2.rest.dataset

Class and Description
ISourceDataset
Profile A set of properties, defining a (e.g.
Property
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.rest.model.builder

Class and Description
LiteratureEntry A Literature entry: title, URL
PredictedVarsTemplate
Property

Classes in ambit2.base.data used by ambit2.rest.model.predictor

Class and Description
Property

Classes in ambit2.base.data used by ambit2.rest.model.task

Class and Description
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.rest.property

Class and Description
Property

Classes in ambit2.base.data used by ambit2.rest.rdf

Class and Description
Bookmark http://www.w3.org/2003/07/Annotea/BookmarkSchema-20030707
ILiteratureEntry
ISourceDataset
LiteratureEntry A Literature entry: title, URL
Property
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.rest.rdf.sparql

Class and Description
Property

Classes in ambit2.base.data used by ambit2.rest.substance

Class and Description
SubstanceRecord Same as the parent class, but with related structures

Classes in ambit2.base.data used by ambit2.rules.json

Class and Description
StructureRecord

Classes in ambit2.base.data used by ambit2.search

Class and Description
Template Templates are just a (meaningful) set of properties

Classes in ambit2.base.data used by ambit2.smarts.processors

Class and Description
Property

Classes in ambit2.base.data used by ambit2.tautomers.processor

Class and Description
Property

Classes in ambit2.base.data used by ambit2.ui

Class and Description
Profile A set of properties, defining a (e.g.
Property

Classes in ambit2.base.data used by ambit2.ui.editors

Class and Description
Profile A set of properties, defining a (e.g.
Property
StringBean
TypedListModel

Classes in ambit2.base.data used by ambit2.ui.table

Class and Description
IFilteredColumns
ISelectableRecords
ISelectableRecords.SELECTION_MODE
ISortableColumns
Profile A set of properties, defining a (e.g.
Property
TypedListModel

Classes in ambit2.base.data used by ambit2.vega

Class and Description
Property