mira
latest
MIRA
Sources of model content
Meta-model
Modeling
Domain Knowledge Graph
Metaregistry
Terarium Client
Examples
Decapodes vs DecaExpr Composite models
mira
Index
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Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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K
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L
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M
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N
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O
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P
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Q
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R
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S
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T
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U
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V
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W
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X
A
ACSetsStockFlowModel (class in mira.modeling.acsets.stockflow)
add_controller() (ControlledConversion method)
(ControlledDegradation method)
(ControlledProduction method)
(GroupedControlledConversion method)
(GroupedControlledDegradation method)
(GroupedControlledProduction method)
add_observable() (in module mira.modeling.amr.ops)
add_parameter() (in module mira.modeling.amr.ops)
(TemplateModel method)
add_resource() (in module mira.dkg)
add_state() (in module mira.modeling.amr.ops)
add_template() (TemplateModel method)
add_transition() (in module mira.modeling.amr.ops)
(TemplateModel method)
aggregate_parameters() (in module mira.metamodel.ops)
(in module mira.modeling.amr.ops)
alts (Entity attribute)
(NodeInfo attribute)
AMRPetriNetModel (class in mira.modeling.amr.petrinet)
AMRRegNetModel (class in mira.modeling.amr.regnet)
AMRStockFlowModel (class in mira.modeling.amr.stockflow)
annotations (TemplateModel attribute)
as_askem_entity() (Entity method)
assemble_parameter() (Model method)
assemble_variable() (Model method)
associate() (in module mira.terarium_client)
authors (Annotations attribute)
B
BilayerModel (class in mira.modeling.bilayer)
C
collections (Config attribute)
compare_models() (TemplateModelComparison method)
concept (Initial attribute)
(ModelParameter attribute)
(Variable attribute)
concept_keys (ControlledConversion attribute)
(ControlledDegradation attribute)
(ControlledProduction attribute)
(ControlledReplication attribute)
(GroupedControlledConversion attribute)
(GroupedControlledDegradation attribute)
(GroupedControlledProduction attribute)
(NaturalConversion attribute)
(NaturalDegradation attribute)
(NaturalProduction attribute)
(NaturalReplication attribute)
(StaticConcept attribute)
concept_nodes (ModelComparisonGraphdata attribute)
consumed (Transition attribute)
context (Concept attribute)
context_refinement() (in module mira.metamodel.templates)
control (Transition attribute)
controller (ControlledConversion attribute)
(ControlledDegradation attribute)
(ControlledProduction attribute)
(ControlledReplication attribute)
controllers (GroupedControlledConversion attribute)
(GroupedControlledDegradation attribute)
(GroupedControlledProduction attribute)
conversion_to_deg_prod() (in module mira.metamodel.templates)
counts_to_dimensionless() (in module mira.metamodel.ops)
(in module mira.modeling.amr.ops)
create_edge() (AMRRegNetModel method)
create_single_property_node_index() (Neo4jClient method)
create_tx() (Neo4jClient method)
curie (NodeInfo attribute)
D
data (Variable attribute)
deactivate() (Template method)
deactivate_templates() (in module mira.metamodel.ops)
Decapode (class in mira.metamodel.decapodes)
definition (NodeInfo attribute)
deprecated (NodeInfo attribute)
description (Annotations attribute)
(Concept attribute)
(Entity attribute)
(ModelParameter attribute)
(Term attribute)
dimensionality (Term attribute)
diseases (Annotations attribute)
display_name (Concept attribute)
(ModelParameter attribute)
(Template attribute)
distribution (ModelParameter attribute)
(Parameter attribute)
DKG_REFINER_RELS (in module mira.dkg.utils)
DOCKER_FILES_ROOT (in module mira.dkg.utils)
draw_graph() (TemplateModel method)
(TemplateModelDelta method)
draw_jupyter() (TemplateModel method)
E
eliminate_duplicate_parameter() (TemplateModel method)
eliminate_parameter() (TemplateModel method)
eliminate_unused_parameters() (TemplateModel method)
EQUIVALENCE_TYPES (in module mira.dkg.askemo.api)
expression (Initial attribute)
(Observable attribute)
(RootVariable attribute)
(Unit attribute)
(Variable attribute)
expression_to_mathml() (in module mira.metamodel.io)
extend() (TemplateModel method)
F
find_models_with_grounding() (in module mira.metamodel.search)
for_jupyter() (GraphicalModel class method)
(TemplateModelDelta class method)
from_data() (Entity class method)
from_json() (Concept class method)
(Initial class method)
(Template class method)
(TemplateModel class method)
(Unit class method)
from_template_model() (GraphicalModel class method)
from_template_models() (ModelComparisonGraphdata class method)
function_str (Op1 attribute)
(Op2 attribute)
G
generate_model_graph() (TemplateModel method)
get_all_used_parameters() (TemplateModel method)
get_app() (in module mira.dkg.metaregistry.utils)
get_askem_climate_ontology_terms() (in module mira.dkg.askemo.api)
get_askemo_terms() (in module mira.dkg.askemo.api)
get_askemosw_terms() (in module mira.dkg.askemo.api)
get_binding_templates() (in module mira.metamodel.templates)
get_budyko_seller_decapode_json() (in module mira.examples.decapodes.decapodes_examples)
get_budyko_sellers_example() (in module mira.examples.decapodes.decapodes_examples)
get_common_parents() (Neo4jClient method)
get_concept() (TemplateModel method)
get_concept_names() (Template method)
get_concepts() (GroupedControlledConversion method)
(GroupedControlledDegradation method)
(GroupedControlledProduction method)
(StaticConcept method)
(Template method)
get_concepts_by_name() (TemplateModel method)
get_concepts_by_role() (Template method)
get_concepts_map() (TemplateModel method)
get_concepts_name_map() (TemplateModel method)
get_controllers() (Template method)
get_curie() (Concept method)
get_curie_str() (Concept method)
get_dkg_refinement_closure() (in module mira.metamodel.comparison)
get_entities_web() (in module mira.dkg.web_client)
get_entity() (Neo4jClient method)
get_entity_web() (in module mira.dkg.web_client)
get_friction_decaexpr() (in module mira.examples.decapodes.decapodes_examples)
get_friction_decapode() (in module mira.examples.decapodes.decapodes_examples)
get_friction_decapode_json() (in module mira.examples.decapodes.decapodes_examples)
get_ice_decapode_json() (in module mira.examples.decapodes.decapodes_examples)
get_ice_dynamics_example() (in module mira.examples.decapodes.decapodes_examples)
get_included_identifiers() (Concept method)
get_independent_mass_action_rate_law() (Template method)
get_interactor_rate_law() (Template method)
get_interactors() (Template method)
get_json_schema() (in module mira.metamodel.schema)
get_key() (Concept method)
(ControlledConversion method)
(ControlledDegradation method)
(ControlledProduction method)
(ControlledReplication method)
(GroupedControlledConversion method)
(GroupedControlledDegradation method)
(GroupedControlledProduction method)
(NaturalConversion method)
(NaturalDegradation method)
(NaturalProduction method)
(NaturalReplication method)
(StaticConcept method)
(Template method)
get_lexical() (Neo4jClient method)
get_lexical_web() (in module mira.dkg.web_client)
get_mass_action_rate_law() (Template method)
get_mass_action_symbol() (Template method)
get_node_counter() (Neo4jClient method)
get_oscillator_decaexpr() (in module mira.examples.decapodes.decapodes_examples)
get_oscillator_decapode() (in module mira.examples.decapodes.decapodes_examples)
get_oscillator_decapode_json() (in module mira.examples.decapodes.decapodes_examples)
get_parameter_names() (Initial method)
(Observable method)
(Template method)
get_parameters_from_rate_law() (TemplateModel method)
get_parseable_expression() (in module mira.metamodel.utils)
get_prefixes() (in module mira.dkg.construct_registry)
get_relations_web() (in module mira.dkg.web_client)
get_rhs() (OdeModel method)
get_sbml_model() (in module mira.sources.biomodels)
get_similarity_score() (ModelComparisonGraphdata method)
get_similarity_scores() (ModelComparisonGraphdata method)
get_sympy() (in module mira.sources.util)
get_template_model() (in module mira.sources.biomodels)
(in module mira.terarium_client)
get_term_roles() (in module mira.metamodel.ops)
get_transitive_closure() (Neo4jClient method)
get_transitive_closure_web() (in module mira.dkg.web_client)
get_unit_terms() (in module mira.dkg.units)
graph_as_json() (TemplateModel method)
(TemplateModelDelta method)
GraphicalModel (class in mira.modeling.viz)
ground_web() (in module mira.dkg.web_client)
H
has_controller() (in module mira.metamodel.templates)
has_outcome() (in module mira.metamodel.templates)
has_subject() (in module mira.metamodel.templates)
header (ModelSpecification attribute)
,
[1]
hosts (Annotations attribute)
I
id (Entity attribute)
(Op1 attribute)
(Op2 attribute)
(Summation attribute)
(TangentVariable attribute)
(Term attribute)
(Variable attribute)
(Xref attribute)
identifiers (Concept attribute)
(Variable attribute)
incl_var (TangentVariable attribute)
initials (TemplateModel attribute)
inter_model_edges (ModelComparisonGraphdata attribute)
intra_model_edges (ModelComparisonGraphdata attribute)
is_conversion() (in module mira.metamodel.templates)
is_degradation() (in module mira.metamodel.templates)
is_equal_to() (Concept method)
(Template method)
is_ontological_child() (RefinementClosure method)
is_ontological_child_web() (in module mira.dkg.web_client)
is_production() (in module mira.metamodel.templates)
is_replication() (in module mira.metamodel.templates)
K
key (ModelParameter attribute)
(Transition attribute)
(Variable attribute)
L
label (NodeInfo attribute)
labels (Entity attribute)
license (Annotations attribute)
link (Entity attribute)
locations (Annotations attribute)
M
make_bilayer() (BilayerModel static method)
make_model() (Model method)
match_concepts() (in module mira.metamodel.templates)
mathml_to_expression() (in module mira.metamodel.io)
metadata (ModelSpecification attribute)
,
[1]
mira.dkg
module
mira.dkg.askemo.api
module
mira.dkg.client
module
mira.dkg.construct
module
mira.dkg.construct_registry
module
mira.dkg.metaregistry
module
mira.dkg.metaregistry.utils
module
mira.dkg.models
module
mira.dkg.units
module
mira.dkg.utils
module
mira.dkg.web_client
module
mira.examples.decapodes.decapodes_examples
module
mira.metamodel
module
mira.metamodel.comparison
module
mira.metamodel.decapodes
module
mira.metamodel.io
module
mira.metamodel.ops
module
mira.metamodel.schema
module
mira.metamodel.search
module
mira.metamodel.template_model
module
mira.metamodel.templates
module
mira.metamodel.units
module
mira.metamodel.utils
module
mira.modeling
module
mira.modeling.acsets.petri
module
mira.modeling.acsets.stockflow
module
mira.modeling.amr.ops
module
mira.modeling.amr.petrinet
module
mira.modeling.amr.regnet
module
mira.modeling.amr.stockflow
module
mira.modeling.bilayer
module
mira.modeling.ode
module
mira.modeling.viz
module
mira.sources
module
mira.sources.acsets.decapodes.deca_expr
module
mira.sources.acsets.decapodes.decapodes
module
mira.sources.acsets.petri
module
mira.sources.acsets.stockflow
module
mira.sources.amr
module
mira.sources.amr.flux_span
module
mira.sources.amr.petrinet
module
mira.sources.amr.regnet
module
mira.sources.amr.stockflow
module
mira.sources.bilayer
module
mira.sources.biomodels
module
mira.sources.sbml.api
module
mira.sources.sbml.qual_api
module
mira.sources.sif
module
mira.sources.system_dynamics.pysd
module
mira.sources.system_dynamics.stella
module
mira.sources.system_dynamics.vensim
module
mira.sources.util
module
mira.terarium_client
module
MiraState (class in mira.dkg.utils)
MissingBaseUrlError
Model (class in mira.modeling)
model (ModelSpecification attribute)
,
[1]
model_from_json() (in module mira.sources.amr)
model_from_json_file() (in module mira.metamodel.io)
(in module mira.sources.amr)
(in module mira.sources.amr.petrinet)
(in module mira.sources.amr.regnet)
model_from_url() (in module mira.sources.amr)
(in module mira.sources.amr.petrinet)
(in module mira.sources.amr.regnet)
model_has_grounding() (in module mira.metamodel.template_model)
model_to_json_file() (in module mira.metamodel.io)
MODEL_TO_PUBMED (in module mira.sources.biomodels)
model_types (Annotations attribute)
ModelParameter (class in mira.modeling)
module
mira.dkg
mira.dkg.askemo.api
mira.dkg.client
mira.dkg.construct
mira.dkg.construct_registry
mira.dkg.metaregistry
mira.dkg.metaregistry.utils
mira.dkg.models
mira.dkg.units
mira.dkg.utils
mira.dkg.web_client
mira.examples.decapodes.decapodes_examples
mira.metamodel
mira.metamodel.comparison
mira.metamodel.decapodes
mira.metamodel.io
mira.metamodel.ops
mira.metamodel.schema
mira.metamodel.search
mira.metamodel.template_model
mira.metamodel.templates
mira.metamodel.units
mira.metamodel.utils
mira.modeling
mira.modeling.acsets.petri
mira.modeling.acsets.stockflow
mira.modeling.amr.ops
mira.modeling.amr.petrinet
mira.modeling.amr.regnet
mira.modeling.amr.stockflow
mira.modeling.bilayer
mira.modeling.ode
mira.modeling.viz
mira.sources
mira.sources.acsets.decapodes.deca_expr
mira.sources.acsets.decapodes.decapodes
mira.sources.acsets.petri
mira.sources.acsets.stockflow
mira.sources.amr
mira.sources.amr.flux_span
mira.sources.amr.petrinet
mira.sources.amr.regnet
mira.sources.amr.stockflow
mira.sources.bilayer
mira.sources.biomodels
mira.sources.sbml.api
mira.sources.sbml.qual_api
mira.sources.sif
mira.sources.system_dynamics.pysd
mira.sources.system_dynamics.stella
mira.sources.system_dynamics.vensim
mira.sources.util
mira.terarium_client
N
name (Annotations attribute)
(Concept attribute)
(Entity attribute)
(Template attribute)
(Term attribute)
(Time attribute)
(Variable attribute)
Neo4jClient (class in mira.dkg.client)
NodeInfo (class in mira.dkg.construct)
NON_COVID_EPI_MODELS (in module mira.sources.biomodels)
num_controllers() (in module mira.metamodel.templates)
O
observables (Model attribute)
(TemplateModel attribute)
obsolete (Entity attribute)
(Term attribute)
OdeModel (class in mira.modeling.ode)
Op1 (class in mira.metamodel.decapodes)
Op2 (class in mira.metamodel.decapodes)
outcome (ControlledConversion attribute)
(ControlledProduction attribute)
(GroupedControlledConversion attribute)
(GroupedControlledProduction attribute)
(NaturalConversion attribute)
(NaturalProduction attribute)
P
parameter_to_mira() (in module mira.sources.util)
parameters (Distribution attribute)
(Model attribute)
(TemplateModel attribute)
parents (Term attribute)
part_ofs (Term attribute)
pathogens (Annotations attribute)
PetriNetModel (class in mira.modeling.acsets.petri)
physical_max (Term attribute)
physical_min (Term attribute)
placeholder (ModelParameter attribute)
post_amr() (in module mira.terarium_client)
post_amr_remote() (in module mira.terarium_client)
post_template_model() (in module mira.terarium_client)
prefix (Entity property)
(NodeInfo attribute)
(Term property)
PREFIXES (in module mira.dkg.utils)
print_params_table() (TemplateModel method)
process_decaexpr() (in module mira.sources.acsets.decapodes.deca_expr)
process_decapode() (in module mira.sources.acsets.decapodes.decapodes)
produced (Transition attribute)
proj1 (Op2 attribute)
proj2 (Op2 attribute)
properties (Entity attribute)
(ModelSpecification attribute)
,
[1]
property_predicates (NodeInfo attribute)
property_values (NodeInfo attribute)
provenance (ControlledConversion attribute)
(ControlledDegradation attribute)
(ControlledProduction attribute)
(ControlledReplication attribute)
(GroupedControlledConversion attribute)
(GroupedControlledDegradation attribute)
(GroupedControlledProduction attribute)
(NaturalConversion attribute)
(NaturalDegradation attribute)
(NaturalProduction attribute)
(NaturalReplication attribute)
(StaticConcept attribute)
Q
query_biomodels() (in module mira.sources.biomodels)
query_nodes() (Neo4jClient method)
query_wikidata() (in module mira.dkg.units)
R
rate_law (Template attribute)
references (Annotations attribute)
refinement_of() (Concept method)
(Template method)
RefinementClosure (class in mira.metamodel.comparison)
registry (Config attribute)
remove_observable() (in module mira.modeling.amr.ops)
remove_parameter() (in module mira.modeling.amr.ops)
remove_state() (in module mira.modeling.amr.ops)
remove_transition() (in module mira.modeling.amr.ops)
replace_initial_expression_mathml() (in module mira.modeling.amr.ops)
replace_initial_expression_sympy() (in module mira.modeling.amr.ops)
replace_initial_id() (in module mira.modeling.amr.ops)
replace_observable_expression_mathml() (in module mira.modeling.amr.ops)
replace_observable_expression_sympy() (in module mira.modeling.amr.ops)
replace_observable_id() (in module mira.modeling.amr.ops)
replace_parameter_id() (in module mira.modeling.amr.ops)
replace_rate_law_mathml() (in module mira.modeling.amr.ops)
replace_rate_law_sympy() (in module mira.modeling.amr.ops)
replace_state_id() (in module mira.modeling.amr.ops)
replace_transition_id() (in module mira.modeling.amr.ops)
reproduce_ode_semantics() (in module mira.sources.amr.flux_span)
res (Op2 attribute)
reset_base_names() (TemplateModel method)
revert_parseable_expression() (in module mira.metamodel.utils)
RootVariable (class in mira.metamodel.decapodes)
S
safe_parse_expr() (in module mira.metamodel.utils)
sanity_check_amr() (in module mira.sources.amr)
sanity_check_tm() (in module mira.metamodel.utils)
save_bilayer() (BilayerModel method)
sbml_model_from_file() (in module mira.sources.sbml.api)
sbml_qual_model_from_file() (in module mira.sources.sbml.qual_api)
search() (Neo4jClient method)
search_web() (in module mira.dkg.web_client)
semantics (ModelSpecification attribute)
,
[1]
set_initials() (TemplateModel method)
set_link() (Entity class method)
set_mass_action_rate_law() (Template method)
set_parameters() (OdeModel method)
(TemplateModel method)
set_rate_law() (Template method)
(TemplateModel method)
simplify_rate_laws() (in module mira.metamodel.ops)
(in module mira.modeling.amr.ops)
simulate_ode_model() (in module mira.modeling.ode)
src (Op1 attribute)
stock_to_concept() (in module mira.sources.acsets.stockflow)
(in module mira.sources.amr.stockflow)
stratify() (in module mira.metamodel.ops)
(in module mira.modeling.amr.ops)
subject (ControlledConversion attribute)
(ControlledDegradation attribute)
(ControlledReplication attribute)
(GroupedControlledConversion attribute)
(GroupedControlledDegradation attribute)
(NaturalConversion attribute)
(NaturalDegradation attribute)
(NaturalReplication attribute)
(StaticConcept attribute)
substitute_parameter() (Initial method)
(Observable method)
(Template method)
(TemplateModel method)
suggested_data_type (Term attribute)
suggested_unit (Term attribute)
sum (Summation attribute)
summands (Summation attribute)
Summation (class in mira.metamodel.decapodes)
SympyExprStr (class in mira.metamodel.utils)
SYNONYM_TYPES (in module mira.dkg.askemo.api)
synonym_types (NodeInfo attribute)
synonyms (Entity attribute)
(NodeInfo attribute)
(Term attribute)
T
TangentVariable (class in mira.metamodel.decapodes)
template_model (Model attribute)
template_model_from_amr_json() (in module mira.sources.amr.petrinet)
(in module mira.sources.amr.regnet)
(in module mira.sources.amr.stockflow)
template_model_from_bilayer() (in module mira.sources.bilayer)
template_model_from_bilayer_file() (in module mira.sources.bilayer)
template_model_from_mdl_file() (in module mira.sources.system_dynamics.vensim)
template_model_from_mdl_url() (in module mira.sources.system_dynamics.vensim)
template_model_from_petri_json() (in module mira.sources.acsets.petri)
template_model_from_pysd_model() (in module mira.sources.system_dynamics.pysd)
template_model_from_sbml_file() (in module mira.sources.sbml.api)
template_model_from_sbml_file_obj() (in module mira.sources.sbml.api)
template_model_from_sbml_model() (in module mira.sources.sbml.api)
template_model_from_sbml_qual_file() (in module mira.sources.sbml.qual_api)
template_model_from_sbml_qual_file_obj() (in module mira.sources.sbml.qual_api)
template_model_from_sbml_qual_model() (in module mira.sources.sbml.qual_api)
template_model_from_sbml_qual_string() (in module mira.sources.sbml.qual_api)
template_model_from_sbml_string() (in module mira.sources.sbml.api)
template_model_from_sif_edges() (in module mira.sources.sif)
template_model_from_sif_file() (in module mira.sources.sif)
template_model_from_sif_url() (in module mira.sources.sif)
template_model_from_stella_model_file() (in module mira.sources.system_dynamics.stella)
template_model_from_stella_model_url() (in module mira.sources.system_dynamics.stella)
template_model_from_stockflow_ascet_json() (in module mira.sources.acsets.stockflow)
template_model_stella_model_string() (in module mira.sources.system_dynamics.stella)
template_model_to_petrinet_json() (in module mira.modeling.amr.petrinet)
template_model_to_regnet_json() (in module mira.modeling.amr.regnet)
template_model_to_stockflow_ascet_json() (in module mira.modeling.acsets.stockflow)
template_model_to_stockflow_json() (in module mira.modeling.amr.stockflow)
template_models (ModelComparisonGraphdata attribute)
template_nodes (ModelComparisonGraphdata attribute)
TemplateModelComparison (class in mira.metamodel.comparison)
TemplateModelDelta (class in mira.metamodel.comparison)
templates (TemplateModel attribute)
templates_equal() (in module mira.metamodel.templates)
tgt (Op1 attribute)
time (TemplateModel attribute)
time_end (Annotations attribute)
time_scale (Annotations attribute)
time_start (Annotations attribute)
to_json() (ACSetsStockFlowModel method)
(AMRPetriNetModel method)
(AMRRegNetModel method)
(AMRStockFlowModel method)
(PetriNetModel method)
to_json_file() (AMRPetriNetModel method)
(AMRRegNetModel method)
(PetriNetModel method)
to_json_str() (AMRPetriNetModel method)
(AMRRegNetModel method)
(PetriNetModel method)
to_pydantic() (AMRPetriNetModel method)
(AMRRegNetModel method)
Transition (class in mira.modeling)
transition_to_templates() (in module mira.sources.util)
transitions (Model attribute)
type (ControlledConversion attribute)
(ControlledDegradation attribute)
(ControlledProduction attribute)
(ControlledReplication attribute)
(Distribution attribute)
(Entity attribute)
(GroupedControlledConversion attribute)
(GroupedControlledDegradation attribute)
(GroupedControlledProduction attribute)
(NaturalConversion attribute)
(NaturalDegradation attribute)
(NaturalProduction attribute)
(NaturalReplication attribute)
(NodeInfo attribute)
(StaticConcept attribute)
(Synonym attribute)
(Term attribute)
(Variable attribute)
(Xref attribute)
typical_max (Term attribute)
typical_min (Term attribute)
U
units (Concept attribute)
(Time attribute)
update_parameter_name() (Template method)
update_parameters() (TemplateModel method)
update_unit_names_resource() (in module mira.dkg.units)
upload_neo4j_s3() (in module mira.dkg.construct)
upload_s3() (in module mira.dkg.construct)
UseCasePaths (class in mira.dkg.construct)
V
value (ModelParameter attribute)
(Parameter attribute)
(Synonym attribute)
Variable (class in mira.metamodel.decapodes)
(class in mira.modeling)
variables (Model attribute)
version (NodeInfo attribute)
W
web (Config attribute)
web_client() (in module mira.dkg.web_client)
with_context() (Concept method)
(ControlledConversion method)
(ControlledDegradation method)
(ControlledProduction method)
(ControlledReplication method)
(GroupedControlledConversion method)
(GroupedControlledDegradation method)
(GroupedControlledProduction method)
(NaturalConversion method)
(NaturalDegradation method)
(NaturalProduction method)
(NaturalReplication method)
(StaticConcept method)
(Template method)
with_controller() (ControlledConversion method)
(ControlledDegradation method)
(ControlledProduction method)
(ControlledReplication method)
with_controllers() (GroupedControlledConversion method)
(GroupedControlledDegradation method)
(GroupedControlledProduction method)
with_mass_action_rate_law() (Template method)
with_rate_law() (Template method)
write() (GraphicalModel method)
X
xref_types (NodeInfo attribute)
xrefs (Entity attribute)
(NodeInfo attribute)
(Term attribute)
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