charge |
SBML type "Species" |
charge,Species-method |
SBML type "Species" |
charge<-,Species-method |
SBML type "Species" |
coerce |
SBML type "SBML" |
coerce,SBML,graph-method |
SBML type "SBML" |
coerce,SBML,SBMLDocument-method |
SBML type "SBML" |
coerce,SBMLDocument,graph-method |
"SBMLDocument" from libsbml |
coerce,SBMLDocument,SBML-method |
"SBMLDocument" from libsbml |
compartment |
SBML type "Species" |
compartment,CompartmentGlyph-method |
SBML type "CompartmentGlyph" |
compartment,CompartmentVolumeRule-method |
SBML type "CompartmentVolumeRule" |
compartment,Species-method |
SBML type "Species" |
Compartment-class |
SBML type "Compartment" |
compartment<-,CompartmentGlyph-method |
SBML type "CompartmentGlyph" |
compartment<-,CompartmentVolumeRule-method |
SBML type "CompartmentVolumeRule" |
compartment<-,Species-method |
SBML type "Species" |
CompartmentGlyph-class |
SBML type "CompartmentGlyph" |
compartmentGlyphs |
SBML type "Layout" |
compartmentGlyphs,Layout-method |
SBML type "Layout" |
compartmentGlyphs<-,Layout-method |
SBML type "Layout" |
compartments |
SBML type "Model" |
compartments,Model-method |
SBML type "Model" |
compartments,SOSResult-method |
SOSResult |
compartments<-,Model-method |
SBML type "Model" |
CompartmentType-class |
SBML Type "CompartmentType" |
compartmentTypes |
SBML type "Model" |
compartmentTypes,Model-method |
SBML type "Model" |
compartmentTypes<-,Model-method |
SBML type "Model" |
CompartmentVolumeRule-class |
SBML type "CompartmentVolumeRule" |
constant |
SBML type "Species" |
constant,Compartment-method |
SBML type "Compartment" |
constant,Parameter-method |
SBML type "Parameter" |
constant,Species-method |
SBML type "Species" |
constant<-,Compartment-method |
SBML type "Compartment" |
constant<-,Parameter-method |
SBML type "Parameter" |
constant<-,Species-method |
SBML type "Species" |
Constraint-class |
SBML Type "Constraint" |
constraints |
SBML type "Model" |
constraints,Model-method |
SBML type "Model" |
constraints<-,Model-method |
SBML type "Model" |
cot |
MathML Utilities |
coth |
MathML Utilities |
createdDate |
SBML Type "ModelHistory" |
createdDate,ModelHistory-method |
SBML Type "ModelHistory" |
createdDate<-,ModelHistory,character-method |
SBML Type "ModelHistory" |
createdDate<-,ModelHistory,POSIXt-method |
SBML Type "ModelHistory" |
creators |
SBML Type "ModelHistory" |
creators,ModelHistory-method |
SBML Type "ModelHistory" |
creators<-,ModelHistory-method |
SBML Type "ModelHistory" |
csc |
MathML Utilities |
csch |
MathML Utilities |
CubicBezier-class |
SBML type "CubicBezier" |
Curve-class |
SBML type "Curve" |
curveSegments |
SBML type "Curve" |
curveSegments,Curve-method |
SBML type "Curve" |
curveSegments<-,Curve-method |
SBML type "Curve" |
CVTerm-class |
SBML Type "CVTerm" |
cvTerms |
SBML type "SBase" |
cvTerms,SBase-method |
SBML type "SBase" |
cvTerms<-,SBase-method |
SBML type "SBase" |
Delay-class |
SBML Type "Delay" |
depth |
SBML type "Dimensions" |
depth,Dimensions-method |
SBML type "Dimensions" |
depth<-,Dimensions-method |
SBML type "Dimensions" |
Describable-class |
Describing objects |
describe |
Describing objects |
describe,AlgebraicRule-method |
Describing objects |
describe,AssignmentRule-method |
Describing objects |
describe,BoundingBox-method |
Describing objects |
describe,Compartment-method |
Describing objects |
describe,CompartmentGlyph-method |
Describing objects |
describe,CompartmentType-method |
Describing objects |
describe,CompartmentVolumeRule-method |
Describing objects |
describe,Constraint-method |
Describing objects |
describe,CubicBezier-method |
Describing objects |
describe,Curve-method |
Describing objects |
describe,CVTerm-method |
Describing objects |
describe,Delay-method |
Describing objects |
describe,Dimensions-method |
Describing objects |
describe,Event-method |
Describing objects |
describe,EventAssignment-method |
Describing objects |
describe,FunctionDefinition-method |
Describing objects |
describe,GraphicalObject-method |
Describing objects |
describe,InitialAssignment-method |
Describing objects |
describe,KineticLaw-method |
Describing objects |
describe,Layout-method |
Describing objects |
describe,LineSegment-method |
Describing objects |
describe,list-method |
Describing objects |
describe,Model-method |
Describing objects |
describe,ModelCreator-method |
Describing objects |
describe,ModelHistory-method |
Describing objects |
describe,Parameter-method |
Describing objects |
describe,ParameterRule-method |
Describing objects |
describe,Point-method |
Describing objects |
describe,RateRule-method |
Describing objects |
describe,Reaction-method |
Describing objects |
describe,ReactionGlyph-method |
Describing objects |
describe,SBML-method |
Describing objects |
describe,SimpleSpeciesReference-method |
Describing objects |
describe,Species-method |
Describing objects |
describe,SpeciesConcentrationRule-method |
Describing objects |
describe,SpeciesGlyph-method |
Describing objects |
describe,SpeciesReference-method |
Describing objects |
describe,SpeciesReferenceGlyph-method |
Describing objects |
describe,SpeciesType-method |
Describing objects |
describe,StoichiometryMath-method |
Describing objects |
describe,TextGlyph-method |
Describing objects |
describe,Trigger-method |
Describing objects |
describe,Unit-method |
Describing objects |
describe,UnitDefinition-method |
Describing objects |
describe-methods |
Describing objects |
design |
Experiment |
design,Experiment-method |
Experiment |
design<-,Experiment-method |
Experiment |
dimensions |
SBML type "Layout" |
dimensions,BoundingBox-method |
SBML type "BoundingBox" |
dimensions,Layout-method |
SBML type "Layout" |
Dimensions-class |
SBML type "Dimensions" |
dimensions<-,BoundingBox-method |
SBML type "BoundingBox" |
dimensions<-,Layout-method |
SBML type "Layout" |
id |
SBML type "UnitDefinition" |
id,BoundingBox-method |
SBML type "BoundingBox" |
id,Compartment-method |
SBML type "Compartment" |
id,CompartmentType-method |
SBML Type "CompartmentType" |
id,Event-method |
SBML type "Event" |
id,FunctionDefinition-method |
SBML type "FunctionDefinition" |
id,GraphicalObject-method |
SBML type "GraphicalObject" |
id,Layout-method |
SBML type "Layout" |
id,Model-method |
SBML type "Model" |
id,Parameter-method |
SBML type "Parameter" |
id,Reaction-method |
SBML type "Reaction" |
id,SimpleSpeciesReference-method |
SBML type "SimpleSpeciesReference" |
id,Species-method |
SBML type "Species" |
id,SpeciesType-method |
SBML Type "SpeciesType" |
id,UnitDefinition-method |
SBML type "UnitDefinition" |
id<-,BoundingBox-method |
SBML type "BoundingBox" |
id<-,Compartment-method |
SBML type "Compartment" |
id<-,CompartmentType-method |
SBML Type "CompartmentType" |
id<-,Event-method |
SBML type "Event" |
id<-,FunctionDefinition-method |
SBML type "FunctionDefinition" |
id<-,GraphicalObject-method |
SBML type "GraphicalObject" |
id<-,Layout-method |
SBML type "Layout" |
id<-,Model-method |
SBML type "Model" |
id<-,Parameter-method |
SBML type "Parameter" |
id<-,Reaction-method |
SBML type "Reaction" |
id<-,SimpleSpeciesReference-method |
SBML type "SimpleSpeciesReference" |
id<-,Species-method |
SBML type "Species" |
id<-,SpeciesType-method |
SBML Type "SpeciesType" |
id<-,UnitDefinition-method |
SBML type "UnitDefinition" |
infos |
SBMLProblems |
infos,SBMLProblems-method |
SBMLProblems |
initialAmount |
SBML type "Species" |
initialAmount,Species-method |
SBML type "Species" |
initialAmount<-,Species-method |
SBML type "Species" |
InitialAssignment-class |
SBML Type "InitialAssignment" |
initialAssignments |
SBML type "Model" |
initialAssignments,Model-method |
SBML type "Model" |
initialAssignments<-,Model-method |
SBML type "Model" |
initialConcentration |
SBML type "Species" |
initialConcentration,Species-method |
SBML type "Species" |
initialConcentration<-,Species-method |
SBML type "Species" |
math |
SBML type "KineticLaw" |
math,Constraint-method |
SBML Type "Constraint" |
math,Delay-method |
SBML Type "Delay" |
math,EventAssignment-method |
SBML type "EventAssignment" |
math,FunctionDefinition-method |
SBML type "FunctionDefinition" |
math,InitialAssignment-method |
SBML Type "InitialAssignment" |
math,KineticLaw-method |
SBML type "KineticLaw" |
math,ParameterRule-method |
SBML type "ParameterRule" |
math,Rule-method |
SBML type "Rule" |
math,StoichiometryMath-method |
SBML type "StoichiometryMath" |
math,Trigger-method |
SBML Type "Trigger" |
math<-,Constraint-method |
SBML Type "Constraint" |
math<-,Delay-method |
SBML Type "Delay" |
math<-,EventAssignment-method |
SBML type "EventAssignment" |
math<-,FunctionDefinition-method |
SBML type "FunctionDefinition" |
math<-,InitialAssignment-method |
SBML Type "InitialAssignment" |
math<-,KineticLaw-method |
SBML type "KineticLaw" |
math<-,ParameterRule-method |
SBML type "ParameterRule" |
math<-,Rule-method |
SBML type "Rule" |
math<-,StoichiometryMath-method |
SBML type "StoichiometryMath" |
math<-,Trigger-method |
SBML Type "Trigger" |
metaId |
SBML type "SBase" |
metaId,SBase-method |
SBML type "SBase" |
metaId<-,SBase-method |
SBML type "SBase" |
model |
SBML type "SBML" |
model,SBML-method |
SBML type "SBML" |
Model-class |
SBML type "Model" |
model<-,SBML-method |
SBML type "SBML" |
ModelCreator-class |
SBML Type "ModelCreator" |
modelHistory |
SBML type "Model" |
modelHistory,Model-method |
SBML type "Model" |
ModelHistory-class |
SBML Type "ModelHistory" |
modelHistory<-,Model-method |
SBML type "Model" |
modelQualifierType |
SBML Type "CVTerm" |
modelQualifierType,CVTerm-method |
SBML Type "CVTerm" |
modelQualifierType<-,CVTerm-method |
SBML Type "CVTerm" |
modifiedDate |
SBML Type "ModelHistory" |
modifiedDate,ModelHistory-method |
SBML Type "ModelHistory" |
modifiedDate<-,ModelHistory,character-method |
SBML Type "ModelHistory" |
modifiedDate<-,ModelHistory,POSIXt-method |
SBML Type "ModelHistory" |
modifiedDate<-,ModelHistory-method |
SBML Type "ModelHistory" |
modifiers |
SBML type "Reaction" |
modifiers,Reaction-method |
SBML type "Reaction" |
modifiers<-,Reaction-method |
SBML type "Reaction" |
ModifierSpeciesReference-class |
SBML type "ModifierSpeciesReference" |
msg |
SBML Type "Constraint" |
msg,Constraint-method |
SBML Type "Constraint" |
msg<-,Constraint-method |
SBML Type "Constraint" |
multiplier |
SBML type "Unit" |
multiplier,Unit-method |
SBML type "Unit" |
multiplier<-,Unit-method |
SBML type "Unit" |
name |
SBML type "UnitDefinition" |
name,Compartment-method |
SBML type "Compartment" |
name,CompartmentType-method |
SBML Type "CompartmentType" |
name,Event-method |
SBML type "Event" |
name,FunctionDefinition-method |
SBML type "FunctionDefinition" |
name,Model-method |
SBML type "Model" |
name,Parameter-method |
SBML type "Parameter" |
name,ParameterRule-method |
SBML type "ParameterRule" |
name,Reaction-method |
SBML type "Reaction" |
name,Species-method |
SBML type "Species" |
name,SpeciesType-method |
SBML Type "SpeciesType" |
name,UnitDefinition-method |
SBML type "UnitDefinition" |
name<-,Compartment-method |
SBML type "Compartment" |
name<-,CompartmentType-method |
SBML Type "CompartmentType" |
name<-,Event-method |
SBML type "Event" |
name<-,FunctionDefinition-method |
SBML type "FunctionDefinition" |
name<-,Model-method |
SBML type "Model" |
name<-,Parameter-method |
SBML type "Parameter" |
name<-,ParameterRule-method |
SBML type "ParameterRule" |
name<-,Reaction-method |
SBML type "Reaction" |
name<-,Species-method |
SBML type "Species" |
name<-,SpeciesType-method |
SBML Type "SpeciesType" |
name<-,UnitDefinition-method |
SBML type "UnitDefinition" |
notes |
SBML type "SBase" |
notes,SBase-method |
SBML type "SBase" |
notes<-,SBase-method |
SBML type "SBase" |
RateRule-class |
SBML type "RateRule" |
reactants |
SBML type "Reaction" |
reactants,Reaction-method |
SBML type "Reaction" |
reactants<-,Reaction-method |
SBML type "Reaction" |
reaction |
SBML type "ReactionGlyph" |
reaction,ReactionGlyph-method |
SBML type "ReactionGlyph" |
Reaction-class |
SBML type "Reaction" |
reaction<-,ReactionGlyph-method |
SBML type "ReactionGlyph" |
ReactionGlyph-class |
SBML type "ReactionGlyph" |
reactionGlyphs |
SBML type "Layout" |
reactionGlyphs,Layout-method |
SBML type "Layout" |
reactionGlyphs<-,Layout-method |
SBML type "Layout" |
reactions |
SBML type "Model" |
reactions,Model-method |
SBML type "Model" |
reactions,SOSDesign-method |
SOSDesign |
reactions,SOSResult-method |
SOSResult |
reactions<-,Experiment-method |
Experiment |
reactions<-,Model-method |
SBML type "Model" |
reactions<-,SOSDesign-method |
SOSDesign |
resources |
SBML Type "CVTerm" |
resources,CVTerm-method |
SBML Type "CVTerm" |
resources<-,CVTerm-method |
SBML Type "CVTerm" |
result |
Experiment |
result,Experiment-method |
Experiment |
result<-,Experiment-method |
Experiment |
reversible |
SBML type "Reaction" |
reversible,Reaction-method |
SBML type "Reaction" |
reversible<-,Reaction-method |
SBML type "Reaction" |
role |
SBML type "SpeciesReferenceGlyph" |
role,SpeciesReferenceGlyph-method |
SBML type "SpeciesReferenceGlyph" |
role<-,SpeciesReferenceGlyph-method |
SBML type "SpeciesReferenceGlyph" |
rsbml_check |
"SBMLDocument" from libsbml |
rsbml_check,SBMLDocument-method |
"SBMLDocument" from libsbml |
rsbml_doc |
SBML type "SBML" |
rsbml_doc,SBML-method |
SBML type "SBML" |
rsbml_dom |
"SBMLDocument" from libsbml |
rsbml_dom,SBMLDocument-method |
"SBMLDocument" from libsbml |
rsbml_graph |
"SBMLDocument" from libsbml |
rsbml_graph,SBML-method |
SBML type "SBML" |
rsbml_graph,SBMLDocument-method |
"SBMLDocument" from libsbml |
rsbml_problems |
"SBMLDocument" from libsbml |
rsbml_problems,SBMLDocument-method |
"SBMLDocument" from libsbml |
rsbml_read |
Read in an SBML file (start here) |
rsbml_write |
SBML type "SBML" |
rsbml_write,SBML-method |
SBML type "SBML" |
rsbml_write,SBMLDocument-method |
"SBMLDocument" from libsbml |
rsbml_xml |
SBML type "SBML" |
rsbml_xml,SBML-method |
SBML type "SBML" |
rsbml_xml,SBMLDocument-method |
"SBMLDocument" from libsbml |
Rule-class |
SBML type "Rule" |
rules |
SBML type "Model" |
rules,Model-method |
SBML type "Model" |
rules<-,Model-method |
SBML type "Model" |
SBase-class |
SBML type "SBase" |
SBML-class |
SBML type "SBML" |
SBMLDocument-class |
"SBMLDocument" from libsbml |
SBMLError-class |
SBMLProblem |
SBMLFatal-class |
SBMLProblem |
SBMLInfo-class |
SBMLProblem |
SBMLProblem-class |
SBMLProblem |
SBMLProblems-class |
SBMLProblems |
SBMLWarning-class |
SBMLProblem |
sboTerm |
SBML type "SBase" |
sboTerm,SBase-method |
SBML type "SBase" |
sboTerm<-,SBase-method |
SBML type "SBase" |
sec |
MathML Utilities |
sech |
MathML Utilities |
show,Describable-method |
Describing objects |
show,SBMLProblem-method |
SBMLProblem |
SimpleSpeciesReference-class |
SBML type "SimpleSpeciesReference" |
simulate |
SOS Experiment |
simulate,SBML-method |
SBML type "SBML" |
simulate,SBMLDocument-method |
"SBMLDocument" from libsbml |
simulate,SOSExperiment-method |
SOS Experiment |
size |
SBML type "Compartment" |
size,Compartment-method |
SBML type "Compartment" |
size<-,Compartment-method |
SBML type "Compartment" |
SOSDesign-class |
SOSDesign |
SOSExperiment-class |
SOS Experiment |
SOSProtocol-class |
SOSProtocol |
SOSResult-class |
SOSResult |
SOSSubject-class |
SOSSubject |
spatialDimensions |
SBML type "Compartment" |
spatialDimensions,Compartment-method |
SBML type "Compartment" |
spatialDimensions<-,Compartment-method |
SBML type "Compartment" |
spatialSizeUnits |
SBML type "Species" |
spatialSizeUnits,Species-method |
SBML type "Species" |
spatialSizeUnits<-,Species-method |
SBML type "Species" |
species |
SBML type "SpeciesGlyph" |
species,Model-method |
SBML type "Model" |
species,SimpleSpeciesReference-method |
SBML type "SimpleSpeciesReference" |
species,SOSResult-method |
SOSResult |
species,SpeciesConcentrationRule-method |
SBML type "SpeciesConcentrationRule" |
species,SpeciesGlyph-method |
SBML type "SpeciesGlyph" |
Species-class |
SBML type "Species" |
species<-,Model-method |
SBML type "Model" |
species<-,SimpleSpeciesReference-method |
SBML type "SimpleSpeciesReference" |
species<-,SpeciesConcentrationRule-method |
SBML type "SpeciesConcentrationRule" |
species<-,SpeciesGlyph-method |
SBML type "SpeciesGlyph" |
SpeciesConcentrationRule-class |
SBML type "SpeciesConcentrationRule" |
speciesGlyph |
SBML type "SpeciesReferenceGlyph" |
speciesGlyph,SpeciesReferenceGlyph-method |
SBML type "SpeciesReferenceGlyph" |
SpeciesGlyph-class |
SBML type "SpeciesGlyph" |
speciesGlyph<-,SpeciesReferenceGlyph-method |
SBML type "SpeciesReferenceGlyph" |
speciesGlyphs |
SBML type "Layout" |
speciesGlyphs,Layout-method |
SBML type "Layout" |
speciesGlyphs<-,Layout-method |
SBML type "Layout" |
speciesReference |
SBML type "SpeciesReferenceGlyph" |
speciesReference,SpeciesReferenceGlyph-method |
SBML type "SpeciesReferenceGlyph" |
SpeciesReference-class |
SBML type "SpeciesReference" |
speciesReference<-,SpeciesReferenceGlyph-method |
SBML type "SpeciesReferenceGlyph" |
SpeciesReferenceGlyph-class |
SBML type "SpeciesReferenceGlyph" |
speciesReferenceGlyphs |
SBML type "ReactionGlyph" |
speciesReferenceGlyphs,ReactionGlyph-method |
SBML type "ReactionGlyph" |
speciesReferenceGlyphs<-,ReactionGlyph-method |
SBML type "ReactionGlyph" |
SpeciesType-class |
SBML Type "SpeciesType" |
speciesTypes |
SBML type "Model" |
speciesTypes,Model-method |
SBML type "Model" |
speciesTypes<-,Model-method |
SBML type "Model" |
start |
SBML type "LineSegment" |
start,LineSegment-method |
SBML type "LineSegment" |
start<-,LineSegment-method |
SBML type "LineSegment" |
stoichiometry |
SBML type "SpeciesReference" |
stoichiometry,SpeciesReference-method |
SBML type "SpeciesReference" |
stoichiometry<-,SpeciesReference-method |
SBML type "SpeciesReference" |
stoichiometryMath |
SBML type "SpeciesReference" |
stoichiometryMath,SpeciesReference-method |
SBML type "SpeciesReference" |
StoichiometryMath-class |
SBML type "StoichiometryMath" |
stoichiometryMath<-,SpeciesReference-method |
SBML type "SpeciesReference" |
subject |
Experiment |
subject,Experiment-method |
Experiment |
subject<-,Experiment-method |
Experiment |
substanceUnits |
SBML type "KineticLaw" |
substanceUnits,KineticLaw-method |
SBML type "KineticLaw" |
substanceUnits,Species-method |
SBML type "Species" |
substanceUnits<-,KineticLaw-method |
SBML type "KineticLaw" |
substanceUnits<-,Species-method |
SBML type "Species" |
symbol |
SBML Type "InitialAssignment" |
symbol,InitialAssignment-method |
SBML Type "InitialAssignment" |
symbol<-,InitialAssignment-method |
SBML Type "InitialAssignment" |