Index
_
|
A
|
B
|
C
|
D
|
E
|
G
|
I
|
L
|
M
|
N
|
P
|
Q
|
R
|
S
|
T
|
U
|
V
_
__get_validators__() (cobra_component_models.io.type.notes_type.NotesType class method)
__init__() (cobra_component_models.orm.abstract_component.AbstractComponent method)
(cobra_component_models.orm.abstract_component.AbstractComponentAnnotation method)
(cobra_component_models.orm.abstract_component.AbstractComponentName method)
(cobra_component_models.orm.mixin.annotation_mixin.AnnotationMixin method)
(cobra_component_models.orm.mixin.name_mixin.NameMixin method)
__repr__() (cobra_component_models.orm.base.CustomBase method)
(cobra_component_models.orm.biology_qualifier.BiologyQualifier method)
(cobra_component_models.orm.compartment_annotation.CompartmentAnnotation method)
(cobra_component_models.orm.compartment_name.CompartmentName method)
(cobra_component_models.orm.compound.Compound method)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation method)
(cobra_component_models.orm.compound_name.CompoundName method)
(cobra_component_models.orm.namespace.Namespace method)
(cobra_component_models.orm.participant.Participant method)
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation method)
(cobra_component_models.orm.reaction_name.ReactionName method)
A
AbstractComponent (class in cobra_component_models.orm.abstract_component)
AbstractComponentAnnotation (class in cobra_component_models.orm.abstract_component)
AbstractComponentName (class in cobra_component_models.orm.abstract_component)
annotation (cobra_component_models.orm.compartment.Compartment attribute)
,
[1]
(cobra_component_models.orm.compound.Compound attribute)
,
[1]
(cobra_component_models.orm.reaction.Reaction attribute)
,
[1]
AnnotationMixin (class in cobra_component_models.orm.mixin.annotation_mixin)
B
biology_qualifier (cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.mixin.annotation_mixin.AnnotationMixin attribute)
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
biology_qualifier_id (cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.mixin.annotation_mixin.AnnotationMixin attribute)
,
[1]
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
BiologyQualifier (class in cobra_component_models.orm.biology_qualifier)
C
charge (cobra_component_models.io.compound_model.CompoundModel attribute)
(cobra_component_models.orm.compound.Compound attribute)
,
[1]
chemical_formula (cobra_component_models.io.compound_model.CompoundModel attribute)
(cobra_component_models.orm.compound.Compound attribute)
,
[1]
cobra_component_models (module)
cobra_component_models.data (module)
cobra_component_models.helpers (module)
cobra_component_models.io (module)
cobra_component_models.io.compartment_model (module)
cobra_component_models.io.components_model (module)
cobra_component_models.io.compound_model (module)
cobra_component_models.io.reaction_model (module)
cobra_component_models.io.type (module)
cobra_component_models.io.type.notes_type (module)
cobra_component_models.orm (module)
cobra_component_models.orm.abstract_component (module)
cobra_component_models.orm.base (module)
cobra_component_models.orm.biology_qualifier (module)
cobra_component_models.orm.compartment (module)
cobra_component_models.orm.compartment_annotation (module)
cobra_component_models.orm.compartment_name (module)
cobra_component_models.orm.compound (module)
cobra_component_models.orm.compound_annotation (module)
cobra_component_models.orm.compound_name (module)
cobra_component_models.orm.mixin (module)
cobra_component_models.orm.mixin.annotation_mixin (module)
cobra_component_models.orm.mixin.name_mixin (module)
cobra_component_models.orm.mixin.timestamp_mixin (module)
cobra_component_models.orm.namespace (module)
cobra_component_models.orm.participant (module)
cobra_component_models.orm.reaction (module)
cobra_component_models.orm.reaction_annotation (module)
cobra_component_models.orm.reaction_name (module)
Compartment (class in cobra_component_models.orm.compartment)
compartment (cobra_component_models.io.reaction_model.ParticipantModel attribute)
(cobra_component_models.orm.participant.Participant attribute)
compartment_id (cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
,
[1]
(cobra_component_models.orm.compartment_name.CompartmentName attribute)
,
[1]
(cobra_component_models.orm.participant.Participant attribute)
CompartmentAnnotation (class in cobra_component_models.orm.compartment_annotation)
CompartmentModel (class in cobra_component_models.io.compartment_model)
CompartmentName (class in cobra_component_models.orm.compartment_name)
compartments (cobra_component_models.io.components_model.ComponentsModel attribute)
ComponentsModel (class in cobra_component_models.io.components_model)
Compound (class in cobra_component_models.orm.compound)
compound (cobra_component_models.orm.participant.Participant attribute)
compound_id (cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
,
[1]
(cobra_component_models.orm.compound_name.CompoundName attribute)
,
[1]
(cobra_component_models.orm.participant.Participant attribute)
CompoundAnnotation (class in cobra_component_models.orm.compound_annotation)
CompoundModel (class in cobra_component_models.io.compound_model)
CompoundName (class in cobra_component_models.orm.compound_name)
compounds (cobra_component_models.io.components_model.ComponentsModel attribute)
created_on (cobra_component_models.orm.biology_qualifier.BiologyQualifier attribute)
(cobra_component_models.orm.compartment.Compartment attribute)
(cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compartment_name.CompartmentName attribute)
(cobra_component_models.orm.compound.Compound attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.compound_name.CompoundName attribute)
(cobra_component_models.orm.mixin.timestamp_mixin.TimestampMixin attribute)
,
[1]
(cobra_component_models.orm.namespace.Namespace attribute)
(cobra_component_models.orm.participant.Participant attribute)
(cobra_component_models.orm.reaction.Reaction attribute)
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
(cobra_component_models.orm.reaction_name.ReactionName attribute)
CustomBase (class in cobra_component_models.orm.base)
D
description (cobra_component_models.orm.namespace.Namespace attribute)
,
[1]
E
embedded_prefix (cobra_component_models.orm.namespace.Namespace attribute)
,
[1]
G
get_map() (cobra_component_models.orm.biology_qualifier.BiologyQualifier class method)
(cobra_component_models.orm.namespace.Namespace class method)
I
id (cobra_component_models.io.compartment_model.CompartmentModel attribute)
(cobra_component_models.io.compound_model.CompoundModel attribute)
(cobra_component_models.io.reaction_model.ReactionModel attribute)
(cobra_component_models.orm.base.CustomBase attribute)
,
[1]
(cobra_component_models.orm.biology_qualifier.BiologyQualifier attribute)
(cobra_component_models.orm.compartment.Compartment attribute)
(cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compartment_name.CompartmentName attribute)
(cobra_component_models.orm.compound.Compound attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.compound_name.CompoundName attribute)
(cobra_component_models.orm.namespace.Namespace attribute)
(cobra_component_models.orm.participant.Participant attribute)
(cobra_component_models.orm.reaction.Reaction attribute)
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
(cobra_component_models.orm.reaction_name.ReactionName attribute)
identifier (cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.mixin.annotation_mixin.AnnotationMixin attribute)
,
[1]
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
inchi (cobra_component_models.orm.compound.Compound attribute)
,
[1]
inchi_key (cobra_component_models.orm.compound.Compound attribute)
,
[1]
init_on_load() (cobra_component_models.orm.namespace.Namespace method)
is_deprecated (cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.mixin.annotation_mixin.AnnotationMixin attribute)
,
[1]
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
is_preferred (cobra_component_models.orm.compartment_name.CompartmentName attribute)
(cobra_component_models.orm.compound_name.CompoundName attribute)
(cobra_component_models.orm.mixin.name_mixin.NameMixin attribute)
,
[1]
(cobra_component_models.orm.reaction_name.ReactionName attribute)
is_product (cobra_component_models.orm.participant.Participant attribute)
L
load() (cobra_component_models.orm.biology_qualifier.BiologyQualifier class method)
M
mass (cobra_component_models.orm.compound.Compound attribute)
,
[1]
miriam_id (cobra_component_models.orm.namespace.Namespace attribute)
,
[1]
N
name (cobra_component_models.orm.compartment_name.CompartmentName attribute)
(cobra_component_models.orm.compound_name.CompoundName attribute)
(cobra_component_models.orm.mixin.name_mixin.NameMixin attribute)
,
[1]
(cobra_component_models.orm.namespace.Namespace attribute)
,
[1]
(cobra_component_models.orm.reaction_name.ReactionName attribute)
NameMixin (class in cobra_component_models.orm.mixin.name_mixin)
names (cobra_component_models.orm.compartment.Compartment attribute)
,
[1]
(cobra_component_models.orm.compound.Compound attribute)
,
[1]
(cobra_component_models.orm.reaction.Reaction attribute)
,
[1]
Namespace (class in cobra_component_models.orm.namespace)
namespace (cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compartment_name.CompartmentName attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.compound_name.CompoundName attribute)
(cobra_component_models.orm.mixin.annotation_mixin.AnnotationMixin attribute)
(cobra_component_models.orm.mixin.name_mixin.NameMixin attribute)
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
(cobra_component_models.orm.reaction_name.ReactionName attribute)
namespace_id (cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compartment_name.CompartmentName attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.compound_name.CompoundName attribute)
(cobra_component_models.orm.mixin.annotation_mixin.AnnotationMixin attribute)
,
[1]
(cobra_component_models.orm.mixin.name_mixin.NameMixin attribute)
,
[1]
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
(cobra_component_models.orm.reaction_name.ReactionName attribute)
notes (cobra_component_models.orm.compartment.Compartment attribute)
,
[1]
(cobra_component_models.orm.compound.Compound attribute)
,
[1]
(cobra_component_models.orm.reaction.Reaction attribute)
,
[1]
NotesType (class in cobra_component_models.io.type.notes_type)
P
Participant (class in cobra_component_models.orm.participant)
ParticipantModel (class in cobra_component_models.io.reaction_model)
participants (cobra_component_models.orm.reaction.Reaction attribute)
pattern (cobra_component_models.orm.namespace.Namespace attribute)
,
[1]
prefix (cobra_component_models.orm.namespace.Namespace attribute)
,
[1]
products (cobra_component_models.io.reaction_model.ReactionModel attribute)
Q
qualifier (cobra_component_models.orm.biology_qualifier.BiologyQualifier attribute)
,
[1]
R
reactants (cobra_component_models.io.reaction_model.ReactionModel attribute)
Reaction (class in cobra_component_models.orm.reaction)
reaction_id (cobra_component_models.orm.participant.Participant attribute)
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
,
[1]
(cobra_component_models.orm.reaction_name.ReactionName attribute)
,
[1]
ReactionAnnotation (class in cobra_component_models.orm.reaction_annotation)
ReactionModel (class in cobra_component_models.io.reaction_model)
ReactionName (class in cobra_component_models.orm.reaction_name)
reactions (cobra_component_models.io.components_model.ComponentsModel attribute)
S
show_versions() (in module cobra_component_models.helpers)
smiles (cobra_component_models.orm.compound.Compound attribute)
,
[1]
stoichiometry (cobra_component_models.io.reaction_model.ParticipantModel attribute)
(cobra_component_models.orm.participant.Participant attribute)
,
[1]
T
TimestampMixin (class in cobra_component_models.orm.mixin.timestamp_mixin)
timezone_aware_now() (in module cobra_component_models.orm.mixin.timestamp_mixin)
U
updated_on (cobra_component_models.orm.biology_qualifier.BiologyQualifier attribute)
(cobra_component_models.orm.compartment.Compartment attribute)
(cobra_component_models.orm.compartment_annotation.CompartmentAnnotation attribute)
(cobra_component_models.orm.compartment_name.CompartmentName attribute)
(cobra_component_models.orm.compound.Compound attribute)
(cobra_component_models.orm.compound_annotation.CompoundAnnotation attribute)
(cobra_component_models.orm.compound_name.CompoundName attribute)
(cobra_component_models.orm.mixin.timestamp_mixin.TimestampMixin attribute)
,
[1]
(cobra_component_models.orm.namespace.Namespace attribute)
(cobra_component_models.orm.participant.Participant attribute)
(cobra_component_models.orm.reaction.Reaction attribute)
(cobra_component_models.orm.reaction_annotation.ReactionAnnotation attribute)
(cobra_component_models.orm.reaction_name.ReactionName attribute)
V
validate() (cobra_component_models.io.type.notes_type.NotesType class method)
validate_identifier() (cobra_component_models.orm.namespace.Namespace method)
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