Class VirusSpecies

java.lang.Object

org.episteme.natural.biology.VirusSpecies

public class VirusSpecies
extends Object

Represents a virus species in biological taxonomy.

VirusSpecies provides taxonomy-level information about a virus, distinguishing species definitions from individual virus particles

Since:

1.0

Author:

Silvere Martin-Michiellot, Gemini AI (Google DeepMind)

Constructor Summary

Constructors

Constructor	Description
VirusSpecies(String name, String commonName, String family, String genus, VirusGenomeType genomeType, VirusMorphology morphology)	Creates a new VirusSpecies with common name.
VirusSpecies(String name, String family, String genus, VirusGenomeType genomeType, VirusMorphology morphology)	Creates a new VirusSpecies.

Method Summary

Modifier and Type	Method	Description
VirusSpecies	addHostSpecies(String host)
static VirusSpecies	bacteriophageT4()
Virus	createIndividual()	Creates a new individual virus particle of this species.
boolean	equals(Object o)
String	getCommonName()
String	getDescription()
String	getFamily()
VirusGenomeType	getGenomeType()
String	getGenus()
List<String>	getHostSpecies()
VirusMorphology	getMorphology()
String	getName()
Quantity<Length>	getTypicalDiameter()
int	hashCode()
static VirusSpecies	hiv1()
static VirusSpecies	influenzaA()
static VirusSpecies	sarsCov2()
VirusSpecies	setClassification(String rank, String value)
VirusSpecies	setDescription(String description)
VirusSpecies	setTypicalDiameter(Quantity<Length> diameter)
VirusSpecies	setTypicalDiameterNm(double diameterNm)
String	toString()

Methods inherited from class Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Constructor Details

VirusSpecies

public VirusSpecies(String name,
 String family,
 String genus,
 VirusGenomeType genomeType,
 VirusMorphology morphology)

Creates a new VirusSpecies.

Parameters:

name - scientific species name

family - virus family (e.g., Coronaviridae)

genus - genus (e.g., Betacoronavirus)

genomeType - type of genetic material

morphology - capsid shape

VirusSpecies

public VirusSpecies(String name,
 String commonName,
 String family,
 String genus,
 VirusGenomeType genomeType,
 VirusMorphology morphology)

Creates a new VirusSpecies with common name.

Method Details

getName

public String getName()

getCommonName

public String getCommonName()

getFamily

public String getFamily()

getGenus

public String getGenus()

getGenomeType

public VirusGenomeType getGenomeType()

getMorphology

public VirusMorphology getMorphology()

getHostSpecies

public List<String> getHostSpecies()

getDescription

public String getDescription()

getTypicalDiameter

public Quantity<Length> getTypicalDiameter()

addHostSpecies

public VirusSpecies addHostSpecies(String host)

setDescription

public VirusSpecies setDescription(String description)

setTypicalDiameter

public VirusSpecies setTypicalDiameter(Quantity<Length> diameter)

setTypicalDiameterNm

public VirusSpecies setTypicalDiameterNm(double diameterNm)

setClassification

public VirusSpecies setClassification(String rank,
 String value)

createIndividual

public Virus createIndividual()

Creates a new individual virus particle of this species.

Returns:

a Virus instance

toString

public String toString()

Overrides:

toString in class Object

equals

public boolean equals(Object o)

Overrides:

equals in class Object

hashCode

public int hashCode()

Overrides:

hashCode in class Object

sarsCov2

public static VirusSpecies sarsCov2()

influenzaA

public static VirusSpecies influenzaA()

hiv1

public static VirusSpecies hiv1()

bacteriophageT4

public static VirusSpecies bacteriophageT4()