Uses of Package
org.episteme.natural.biology

Packages that use org.episteme.natural.biology

Package	Description
org.episteme.natural.biology
org.episteme.natural.biology.cell
org.episteme.natural.biology.ecology
org.episteme.natural.biology.genealogy	Biological taxonomy, genetics, and physiological modeling.
org.episteme.natural.biology.loaders
org.episteme.natural.biology.loaders.biopax	BioPAX loader for biological pathways and networks.
org.episteme.natural.biology.loaders.itis	Biological taxonomy, genetics, and physiological modeling.
org.episteme.natural.biology.loaders.pdbml	PDBML loader for Protein Data Bank macromolecular structures.
org.episteme.natural.biology.loaders.sbml	Systems Biology Markup Language (SBML) loader for Episteme.
org.episteme.natural.biology.taxonomy
org.episteme.natural.earth
org.episteme.natural.methodology.experiment	Core functionality for the org.episteme.core.methodology.experiment package in the Episteme library.
org.episteme.social.arts	- artworks, music, literature classification.
org.episteme.social.economics	Provides comprehensive mathematical models for economic systems, agent-based modeling, and financial analysis.
org.episteme.social.economics.resources	Provides classes and interfaces for representing economic resources.
org.episteme.social.geography	Provides classes for social geography, human settlements, and mapping.
org.episteme.social.law	Provides the org.episteme.social.law module.
org.episteme.social.linguistics	Provides mathematical and computational models for natural language processing, linguistic analysis, and glottochronology.
org.episteme.social.medicine.consultation	Core functionality for the org.episteme.social.medicine.consultation package in the Episteme library.
org.episteme.social.politics	Provides the org.episteme.social.politics module.
org.episteme.social.psychology	Provides the org.episteme.social.psychology module.
org.episteme.social.psychology.social	Provides the org.episteme.social.psychology.social module.
org.episteme.social.sociology	- social structures, persons, and cultural modeling.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology

Class	Description
Base	Represents the nucleobases found in DNA and RNA.
Behavior	Represents a biological behavior or action pattern.
BioChemicalReaction	Represents a biochemical reaction converting reactants to products.
BioChemicalReaction.BioProduct
BioChemicalReaction.BioReactant
BiologicalSex	Extensible enumeration for biological sex.
BiologyConstants.Diet	Dietary classifications.
BiologyConstants.InteractionType	Ecological interaction types.
BiologyConstants.Sense	Sensory perception types.
BiologyConstants.TaxonomicRank	Taxonomic ranks.
BiologyConstants.ThermalRegulation	Thermal regulation modes.
BiologyConstants.TrophicLevel	Trophic levels.
BloodType	Extensible categorization of human blood types.
DNA	Represents a Deoxyribonucleic acid (DNA) strand.
DynasticCalculator.DynasticPerson	Represents a person within a dynastic lineage.
DynasticCalculator.Gender	Gender for dynastic succession priority logic.
Individual	Represents an individual organism - a single instance of a species.
LifeStage	Extensible categorization of organism life stages.
OrganType	Extensible categorization of biological organs (e.g.
Protein.Chain
Protein.Residue
ProteinFolding.Residue
ProteinFolding.Structure
ProteinSecondaryStructure.StructurePrediction
ProteinSecondaryStructure.StructureType
ReproductionMode	Extensible categorization of biological reproduction modes.
RNA	Represents a Ribonucleic acid (RNA) strand.
SocialEntity	Base class for all social entities (individuals or collectives).
Taxon	Represents a taxonomic group in a phylogenetic tree.
Tissue	Represents a biological tissue.
TissueType	Extensible categorization of biological tissues (e.g.
Virus	Represents a virus - an infectious agent that replicates inside living cells.
Virus.Stage	Virus lifecycle stages.
VirusGenomeType	Extensible enumeration for virus genome types (Baltimore classification).
VirusMorphology	Extensible enumeration for virus morphology.
VirusSpecies	Represents a virus species in biological taxonomy.
Vitamin	Represents a vitamin with nutritional data.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.cell

Class	Description
DNA	Represents a Deoxyribonucleic acid (DNA) strand.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.ecology

Class	Description
BiologicalSex	Extensible enumeration for biological sex.
Individual	Represents an individual organism - a single instance of a species.
LifeStage	Extensible categorization of organism life stages.
SocialCollective	Represents a collective of biological or social agents (individuals or subgroups).
SocialEntity	Base class for all social entities (individuals or collectives).

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.genealogy

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.loaders

Class	Description
Protein	Represents a protein structure composed of polypeptide chains.
ProteinFolding	Advanced protein secondary structure prediction and energy-based folding simulation.
Taxon	Represents a taxonomic group in a phylogenetic tree.
VirusSpecies	Represents a virus species in biological taxonomy.
Vitamin	Represents a vitamin with nutritional data.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.loaders.biopax

Class	Description
BioChemicalReaction	Represents a biochemical reaction converting reactants to products.
Pathway	Represents a biological pathway - a series of biochemical reactions.
Protein	Represents a protein structure composed of polypeptide chains.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.loaders.itis

Class	Description
Taxon	Represents a taxonomic group in a phylogenetic tree.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.loaders.pdbml

Class	Description
Protein	Represents a protein structure composed of polypeptide chains.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.loaders.sbml

Class	Description
BioChemicalReaction	Represents a biochemical reaction converting reactants to products.

Classes in org.episteme.natural.biology used by org.episteme.natural.biology.taxonomy

Class	Description
Organ	Represents a biological organ.
Tissue	Represents a biological tissue.

Classes in org.episteme.natural.biology used by org.episteme.natural.earth

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.natural.methodology.experiment

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.arts

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.economics

Class	Description
Individual	Represents an individual organism - a single instance of a species.
SocialCollective	Represents a collective of biological or social agents (individuals or subgroups).
SocialEntity	Base class for all social entities (individuals or collectives).

Classes in org.episteme.natural.biology used by org.episteme.social.economics.resources

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.geography

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.law

Class	Description
BiologicalSex	Extensible enumeration for biological sex.
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.linguistics

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.medicine.consultation

Class	Description
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.politics

Class	Description
Individual	Represents an individual organism - a single instance of a species.
SocialCollective	Represents a collective of biological or social agents (individuals or subgroups).
SocialEntity	Base class for all social entities (individuals or collectives).

Classes in org.episteme.natural.biology used by org.episteme.social.psychology

Class	Description
Behavior	Represents a biological behavior or action pattern.
Individual	Represents an individual organism - a single instance of a species.

Classes in org.episteme.natural.biology used by org.episteme.social.psychology.social

Class	Description
Individual	Represents an individual organism - a single instance of a species.
SocialCollective	Represents a collective of biological or social agents (individuals or subgroups).
SocialEntity	Base class for all social entities (individuals or collectives).

Classes in org.episteme.natural.biology used by org.episteme.social.sociology

Class	Description
BiologicalSex	Extensible enumeration for biological sex.
BloodType	Extensible categorization of human blood types.
Individual	Represents an individual organism - a single instance of a species.
SocialCollective	Represents a collective of biological or social agents (individuals or subgroups).
SocialEntity	Base class for all social entities (individuals or collectives).