Class SBMLReaction

java.lang.Object
org.episteme.natural.biology.loaders.sbml.SBMLReaction
public class SBMLReaction extends Object
Represents a reaction in an SBML model.
Since:
1.0
Author:
Silvere Martin-Michiellot, Gemini AI (Google DeepMind)

  • Constructor Details

    • SBMLReaction

      public SBMLReaction()

  • Method Details

    • getId

      public String getId()

    • setId

      public void setId(String id)

    • getName

      public String getName()

    • setName

      public void setName(String name)

    • isReversible

      public boolean isReversible()

    • setReversible

      public void setReversible(boolean reversible)

    • isFast

      public boolean isFast()

    • setFast

      public void setFast(boolean fast)

    • getKineticLawFormula

      public String getKineticLawFormula()

    • setKineticLawFormula

      public void setKineticLawFormula(String kineticLawFormula)

    • getReactants

      public Map<String,Real> getReactants()

    • addReactant

      public void addReactant(String speciesId, Real stoichiometry)

    • getProducts

      public Map<String,Real> getProducts()

    • addProduct

      public void addProduct(String speciesId, Real stoichiometry)

    • getModifiers

      public List<String> getModifiers()

    • addModifier

      public void addModifier(String speciesId)

    • getLocalParameters

      public Map<String,Real> getLocalParameters()

    • addLocalParameter

      public void addLocalParameter(String parameterId, Real value)

    • getLowerBound

      public Real getLowerBound()

    • setLowerBound

      public void setLowerBound(Real lowerFluxBound)

    • getUpperBound

      public Real getUpperBound()

    • setUpperBound

      public void setUpperBound(Real upperFluxBound)

    • getGeneProductAssociation

      public String getGeneProductAssociation()

    • setGeneProductAssociation

      public void setGeneProductAssociation(String geneProductAssociation)

    • getEquationString

      public String getEquationString()
      Returns a human-readable reaction equation string.

    • toString

      public String toString()
      Overrides:
      toString in class Object