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A
add_all_to_document() (in module neuroml.utils)
AdExIaFCell (class in neuroml.nml.nml)
AlphaCondSynapse (class in neuroml.nml.nml)
AlphaCurrentSynapse (class in neuroml.nml.nml)
AlphaCurrSynapse (class in neuroml.nml.nml)
AlphaSynapse (class in neuroml.nml.nml)
Annotation (class in neuroml.nml.nml)
append() (neuroml.arraymorph.SegmentList method)
append_to_element() (in module neuroml.utils)
ArrayMorphLoader (class in neuroml.loaders)
ArrayMorphology (class in neuroml.arraymorph)
ArrayMorphWriter (class in neuroml.writers)
B
Base (class in neuroml.nml.nml)
BaseCell (class in neuroml.nml.nml)
BaseCellMembPotCap (class in neuroml.nml.nml)
BaseConductanceBasedSynapse (class in neuroml.nml.nml)
BaseConductanceBasedSynapseTwo (class in neuroml.nml.nml)
BaseConnection (class in neuroml.nml.nml)
BaseConnectionNewFormat (class in neuroml.nml.nml)
BaseConnectionOldFormat (class in neuroml.nml.nml)
BaseCurrentBasedSynapse (class in neuroml.nml.nml)
BaseNonNegativeIntegerId (class in neuroml.nml.nml)
BaseProjection (class in neuroml.nml.nml)
basePyNNCell (class in neuroml.nml.nml)
basePyNNIaFCell (class in neuroml.nml.nml)
basePyNNIaFCondCell (class in neuroml.nml.nml)
BasePynnSynapse (class in neuroml.nml.nml)
BaseSynapse (class in neuroml.nml.nml)
BaseVoltageDepSynapse (class in neuroml.nml.nml)
BaseWithoutId (class in neuroml.nml.nml)
BiophysicalProperties (class in neuroml.nml.nml)
BiophysicalProperties2CaPools (class in neuroml.nml.nml)
BlockingPlasticSynapse (class in neuroml.nml.nml)
C
Cell (class in neuroml.nml.nml)
Cell2CaPools (class in neuroml.nml.nml)
CellSet (class in neuroml.nml.nml)
ChannelDensity (class in neuroml.nml.nml)
ChannelDensityGHK (class in neuroml.nml.nml)
ChannelDensityGHK2 (class in neuroml.nml.nml)
ChannelDensityNernst (class in neuroml.nml.nml)
ChannelDensityNernstCa2 (class in neuroml.nml.nml)
ChannelDensityNonUniform (class in neuroml.nml.nml)
ChannelDensityNonUniformGHK (class in neuroml.nml.nml)
ChannelDensityNonUniformNernst (class in neuroml.nml.nml)
ChannelDensityVShift (class in neuroml.nml.nml)
ChannelPopulation (class in neuroml.nml.nml)
children() (neuroml.arraymorph.ArrayMorphology method)
ClosedState (class in neuroml.nml.nml)
ComponentType (class in neuroml.nml.nml)
CompoundInput (class in neuroml.nml.nml)
CompoundInputDL (class in neuroml.nml.nml)
ConcentrationModel_D (class in neuroml.nml.nml)
ConditionalDerivedVariable (class in neuroml.nml.nml)
Connection (class in neuroml.nml.nml)
ConnectionWD (class in neuroml.nml.nml)
Constant (class in neuroml.nml.nml)
ContinuousConnection (class in neuroml.nml.nml)
ContinuousConnectionInstance (class in neuroml.nml.nml)
ContinuousConnectionInstanceW (class in neuroml.nml.nml)
ContinuousProjection (class in neuroml.nml.nml)
D
DecayingPoolConcentrationModel (class in neuroml.nml.nml)
DerivedVariable (class in neuroml.nml.nml)
DoubleSynapse (class in neuroml.nml.nml)
Dynamics (class in neuroml.nml.nml)
E
EIF_cond_alpha_isfa_ista (class in neuroml.nml.nml)
EIF_cond_exp_isfa_ista (class in neuroml.nml.nml)
ElectricalConnection (class in neuroml.nml.nml)
ElectricalConnectionInstance (class in neuroml.nml.nml)
ElectricalConnectionInstanceW (class in neuroml.nml.nml)
ElectricalProjection (class in neuroml.nml.nml)
ExpCondSynapse (class in neuroml.nml.nml)
ExpCurrSynapse (class in neuroml.nml.nml)
ExplicitInput (class in neuroml.nml.nml)
ExpOneSynapse (class in neuroml.nml.nml)
Exposure (class in neuroml.nml.nml)
ExpThreeSynapse (class in neuroml.nml.nml)
ExpTwoSynapse (class in neuroml.nml.nml)
ExtracellularProperties (class in neuroml.nml.nml)
F
FitzHughNagumo1969Cell (class in neuroml.nml.nml)
FitzHughNagumoCell (class in neuroml.nml.nml)
FixedFactorConcentrationModel (class in neuroml.nml.nml)
ForwardTransition (class in neuroml.nml.nml)
G
GapJunction (class in neuroml.nml.nml)
GateFractional (class in neuroml.nml.nml)
GateFractionalSubgate (class in neuroml.nml.nml)
GateHHInstantaneous (class in neuroml.nml.nml)
GateHHRates (class in neuroml.nml.nml)
GateHHRatesInf (class in neuroml.nml.nml)
GateHHRatesTau (class in neuroml.nml.nml)
GateHHRatesTauInf (class in neuroml.nml.nml)
GateHHTauInf (class in neuroml.nml.nml)
GateHHUndetermined (class in neuroml.nml.nml)
GateKS (class in neuroml.nml.nml)
get_summary() (in module neuroml.utils)
GradedSynapse (class in neuroml.nml.nml)
H
has_segment_fraction_info() (in module neuroml.utils)
HH_cond_exp (class in neuroml.nml.nml)
I
IafCell (class in neuroml.nml.nml)
IafRefCell (class in neuroml.nml.nml)
IafTauCell (class in neuroml.nml.nml)
IafTauRefCell (class in neuroml.nml.nml)
IF_cond_alpha (class in neuroml.nml.nml)
IF_cond_exp (class in neuroml.nml.nml)
IF_curr_alpha (class in neuroml.nml.nml)
IF_curr_exp (class in neuroml.nml.nml)
InhomogeneousParameter (class in neuroml.nml.nml)
InitMembPotential (class in neuroml.nml.nml)
Input (class in neuroml.nml.nml)
InputList (class in neuroml.nml.nml)
InputW (class in neuroml.nml.nml)
IonChannel (class in neuroml.nml.nml)
IonChannelHH (class in neuroml.nml.nml)
IonChannelKS (class in neuroml.nml.nml)
IonChannelScalable (class in neuroml.nml.nml)
IonChannelVShift (class in neuroml.nml.nml)
is_valid_neuroml2() (in module neuroml.utils)
Izhikevich2007Cell (class in neuroml.nml.nml)
IzhikevichCell (class in neuroml.nml.nml)
J
JSONLoader (class in neuroml.loaders)
JSONWriter (class in neuroml.writers)
L
LinearGradedSynapse (class in neuroml.nml.nml)
load() (neuroml.loaders.ArrayMorphLoader class method)
(neuroml.loaders.JSONLoader class method)
(neuroml.loaders.NeuroMLHdf5Loader class method)
(neuroml.loaders.NeuroMLLoader class method)
load_from_mongodb() (neuroml.loaders.JSONLoader class method)
load_swc_single() (neuroml.loaders.SWCLoader class method)
M
main() (in module neuroml.utils)
module
neuroml.__init__
neuroml.arraymorph
neuroml.loaders
neuroml.nml.nml
neuroml.test.test_segment
neuroml.utils
neuroml.writers
Morphology (class in neuroml.nml.nml)
N
Network (class in neuroml.nml.nml)
neuroml.__init__
module
neuroml.arraymorph
module
neuroml.loaders
module
neuroml.nml.nml
module
neuroml.test.test_segment
module
neuroml.utils
module
neuroml.writers
module
NeuroMLDocument (class in neuroml.nml.nml)
NeuroMLHdf5Loader (class in neuroml.loaders)
NeuroMLHdf5Writer (class in neuroml.writers)
NeuroMLLoader (class in neuroml.loaders)
NeuroMLWriter (class in neuroml.writers)
num_vertices() (neuroml.arraymorph.ArrayMorphology property)
O
OpenState (class in neuroml.nml.nml)
P
parent_id() (neuroml.arraymorph.ArrayMorphology method)
physical_indices() (neuroml.arraymorph.ArrayMorphology property)
PinskyRinzelCA3Cell (class in neuroml.nml.nml)
Point3DWithDiam (class in neuroml.nml.nml)
PoissonFiringSynapse (class in neuroml.nml.nml)
pop() (neuroml.arraymorph.ArrayMorphology method)
Population (class in neuroml.nml.nml)
print_() (in module neuroml.loaders)
print_summary() (in module neuroml.utils)
Projection (class in neuroml.nml.nml)
Property (class in neuroml.nml.nml)
PulseGenerator (class in neuroml.nml.nml)
PulseGeneratorDL (class in neuroml.nml.nml)
R
RampGenerator (class in neuroml.nml.nml)
RampGeneratorDL (class in neuroml.nml.nml)
ReactionScheme (class in neuroml.nml.nml)
read_neuroml2_file() (in module neuroml.loaders)
read_neuroml2_string() (in module neuroml.loaders)
Region (class in neuroml.nml.nml)
Resistivity (class in neuroml.nml.nml)
ReverseTransition (class in neuroml.nml.nml)
root_index() (neuroml.arraymorph.ArrayMorphology property)
root_vertex() (neuroml.arraymorph.ArrayMorphology property)
runTest() (neuroml.test.test_segment.TestHelperProperties method)
S
Segment (class in neuroml.nml.nml)
segment_from_vertex_index() (neuroml.arraymorph.ArrayMorphology method)
SegmentGroup (class in neuroml.nml.nml)
SegmentList (class in neuroml.arraymorph)
SilentSynapse (class in neuroml.nml.nml)
SineGenerator (class in neuroml.nml.nml)
SineGeneratorDL (class in neuroml.nml.nml)
Space (class in neuroml.nml.nml)
Species (class in neuroml.nml.nml)
SpecificCapacitance (class in neuroml.nml.nml)
Spike (class in neuroml.nml.nml)
SpikeArray (class in neuroml.nml.nml)
SpikeGenerator (class in neuroml.nml.nml)
SpikeGeneratorPoisson (class in neuroml.nml.nml)
SpikeGeneratorRandom (class in neuroml.nml.nml)
SpikeGeneratorRefPoisson (class in neuroml.nml.nml)
SpikeSourcePoisson (class in neuroml.nml.nml)
SpikeThresh (class in neuroml.nml.nml)
Standalone (class in neuroml.nml.nml)
superclass (neuroml.nml.nml.AdExIaFCell attribute)
(neuroml.nml.nml.AlphaCondSynapse attribute)
(neuroml.nml.nml.AlphaCurrentSynapse attribute)
(neuroml.nml.nml.AlphaCurrSynapse attribute)
(neuroml.nml.nml.AlphaSynapse attribute)
(neuroml.nml.nml.Base attribute)
(neuroml.nml.nml.BaseCell attribute)
(neuroml.nml.nml.BaseCellMembPotCap attribute)
(neuroml.nml.nml.BaseConductanceBasedSynapse attribute)
(neuroml.nml.nml.BaseConductanceBasedSynapseTwo attribute)
(neuroml.nml.nml.BaseConnection attribute)
(neuroml.nml.nml.BaseConnectionNewFormat attribute)
(neuroml.nml.nml.BaseConnectionOldFormat attribute)
(neuroml.nml.nml.BaseCurrentBasedSynapse attribute)
(neuroml.nml.nml.BaseNonNegativeIntegerId attribute)
(neuroml.nml.nml.BaseProjection attribute)
(neuroml.nml.nml.basePyNNCell attribute)
(neuroml.nml.nml.basePyNNIaFCell attribute)
(neuroml.nml.nml.basePyNNIaFCondCell attribute)
(neuroml.nml.nml.BasePynnSynapse attribute)
(neuroml.nml.nml.BaseSynapse attribute)
(neuroml.nml.nml.BaseVoltageDepSynapse attribute)
(neuroml.nml.nml.BiophysicalProperties attribute)
(neuroml.nml.nml.BiophysicalProperties2CaPools attribute)
(neuroml.nml.nml.BlockingPlasticSynapse attribute)
(neuroml.nml.nml.Cell attribute)
(neuroml.nml.nml.Cell2CaPools attribute)
(neuroml.nml.nml.CellSet attribute)
(neuroml.nml.nml.ChannelDensity attribute)
(neuroml.nml.nml.ChannelDensityGHK attribute)
(neuroml.nml.nml.ChannelDensityGHK2 attribute)
(neuroml.nml.nml.ChannelDensityNernst attribute)
(neuroml.nml.nml.ChannelDensityNernstCa2 attribute)
(neuroml.nml.nml.ChannelDensityNonUniform attribute)
(neuroml.nml.nml.ChannelDensityNonUniformGHK attribute)
(neuroml.nml.nml.ChannelDensityNonUniformNernst attribute)
(neuroml.nml.nml.ChannelDensityVShift attribute)
(neuroml.nml.nml.ChannelPopulation attribute)
(neuroml.nml.nml.ClosedState attribute)
(neuroml.nml.nml.CompoundInput attribute)
(neuroml.nml.nml.CompoundInputDL attribute)
(neuroml.nml.nml.ConcentrationModel_D attribute)
(neuroml.nml.nml.Connection attribute)
(neuroml.nml.nml.ConnectionWD attribute)
(neuroml.nml.nml.ContinuousConnection attribute)
(neuroml.nml.nml.ContinuousConnectionInstance attribute)
(neuroml.nml.nml.ContinuousConnectionInstanceW attribute)
(neuroml.nml.nml.ContinuousProjection attribute)
(neuroml.nml.nml.DecayingPoolConcentrationModel attribute)
(neuroml.nml.nml.DoubleSynapse attribute)
(neuroml.nml.nml.EIF_cond_alpha_isfa_ista attribute)
(neuroml.nml.nml.EIF_cond_exp_isfa_ista attribute)
(neuroml.nml.nml.ElectricalConnection attribute)
(neuroml.nml.nml.ElectricalConnectionInstance attribute)
(neuroml.nml.nml.ElectricalConnectionInstanceW attribute)
(neuroml.nml.nml.ElectricalProjection attribute)
(neuroml.nml.nml.ExpCondSynapse attribute)
(neuroml.nml.nml.ExpCurrSynapse attribute)
(neuroml.nml.nml.ExpOneSynapse attribute)
(neuroml.nml.nml.ExpThreeSynapse attribute)
(neuroml.nml.nml.ExpTwoSynapse attribute)
(neuroml.nml.nml.ExtracellularProperties attribute)
(neuroml.nml.nml.FitzHughNagumo1969Cell attribute)
(neuroml.nml.nml.FitzHughNagumoCell attribute)
(neuroml.nml.nml.FixedFactorConcentrationModel attribute)
(neuroml.nml.nml.ForwardTransition attribute)
(neuroml.nml.nml.GapJunction attribute)
(neuroml.nml.nml.GateFractional attribute)
(neuroml.nml.nml.GateFractionalSubgate attribute)
(neuroml.nml.nml.GateHHInstantaneous attribute)
(neuroml.nml.nml.GateHHRates attribute)
(neuroml.nml.nml.GateHHRatesInf attribute)
(neuroml.nml.nml.GateHHRatesTau attribute)
(neuroml.nml.nml.GateHHRatesTauInf attribute)
(neuroml.nml.nml.GateHHTauInf attribute)
(neuroml.nml.nml.GateHHUndetermined attribute)
(neuroml.nml.nml.GateKS attribute)
(neuroml.nml.nml.GradedSynapse attribute)
(neuroml.nml.nml.HH_cond_exp attribute)
(neuroml.nml.nml.IafCell attribute)
(neuroml.nml.nml.IafRefCell attribute)
(neuroml.nml.nml.IafTauCell attribute)
(neuroml.nml.nml.IafTauRefCell attribute)
(neuroml.nml.nml.IF_cond_alpha attribute)
(neuroml.nml.nml.IF_cond_exp attribute)
(neuroml.nml.nml.IF_curr_alpha attribute)
(neuroml.nml.nml.IF_curr_exp attribute)
(neuroml.nml.nml.InhomogeneousParameter attribute)
(neuroml.nml.nml.InputList attribute)
(neuroml.nml.nml.InputW attribute)
(neuroml.nml.nml.IonChannel attribute)
(neuroml.nml.nml.IonChannelHH attribute)
(neuroml.nml.nml.IonChannelKS attribute)
(neuroml.nml.nml.IonChannelScalable attribute)
(neuroml.nml.nml.IonChannelVShift attribute)
(neuroml.nml.nml.Izhikevich2007Cell attribute)
(neuroml.nml.nml.IzhikevichCell attribute)
(neuroml.nml.nml.LinearGradedSynapse attribute)
(neuroml.nml.nml.Morphology attribute)
(neuroml.nml.nml.Network attribute)
(neuroml.nml.nml.NeuroMLDocument attribute)
(neuroml.nml.nml.OpenState attribute)
(neuroml.nml.nml.PinskyRinzelCA3Cell attribute)
(neuroml.nml.nml.PoissonFiringSynapse attribute)
(neuroml.nml.nml.Population attribute)
(neuroml.nml.nml.Projection attribute)
(neuroml.nml.nml.PulseGenerator attribute)
(neuroml.nml.nml.PulseGeneratorDL attribute)
(neuroml.nml.nml.RampGenerator attribute)
(neuroml.nml.nml.RampGeneratorDL attribute)
(neuroml.nml.nml.ReactionScheme attribute)
(neuroml.nml.nml.Region attribute)
(neuroml.nml.nml.ReverseTransition attribute)
(neuroml.nml.nml.Segment attribute)
(neuroml.nml.nml.SegmentGroup attribute)
(neuroml.nml.nml.SilentSynapse attribute)
(neuroml.nml.nml.SineGenerator attribute)
(neuroml.nml.nml.SineGeneratorDL attribute)
(neuroml.nml.nml.Space attribute)
(neuroml.nml.nml.Spike attribute)
(neuroml.nml.nml.SpikeArray attribute)
(neuroml.nml.nml.SpikeGenerator attribute)
(neuroml.nml.nml.SpikeGeneratorPoisson attribute)
(neuroml.nml.nml.SpikeGeneratorRandom attribute)
(neuroml.nml.nml.SpikeGeneratorRefPoisson attribute)
(neuroml.nml.nml.SpikeSourcePoisson attribute)
(neuroml.nml.nml.Standalone attribute)
(neuroml.nml.nml.TauInfTransition attribute)
(neuroml.nml.nml.TimedSynapticInput attribute)
(neuroml.nml.nml.TransientPoissonFiringSynapse attribute)
(neuroml.nml.nml.VoltageClamp attribute)
(neuroml.nml.nml.VoltageClampTriple attribute)
SWCLoader (class in neuroml.loaders)
SynapticConnection (class in neuroml.nml.nml)
T
TauInfTransition (class in neuroml.nml.nml)
test_area() (neuroml.test.test_segment.TestHelperProperties method)
test_area0() (neuroml.test.test_segment.TestHelperProperties method)
test_area1() (neuroml.test.test_segment.TestHelperProperties method)
test_distal_coordinates() (neuroml.test.test_segment.TestSingleSegment method)
test_distal_diameter() (neuroml.test.test_segment.TestSingleSegment method)
test_length() (neuroml.test.test_segment.TestHelperProperties method)
test_length0() (neuroml.test.test_segment.TestHelperProperties method)
test_proximal_coordinates() (neuroml.test.test_segment.TestSingleSegment method)
test_proximal_diameter() (neuroml.test.test_segment.TestSingleSegment method)
test_volume() (neuroml.test.test_segment.TestHelperProperties method)
test_volume0() (neuroml.test.test_segment.TestHelperProperties method)
test_volume1() (neuroml.test.test_segment.TestHelperProperties method)
TestAttachedSegments (class in neuroml.test.test_segment)
TestHelperProperties (class in neuroml.test.test_segment)
TestSingleSegment (class in neuroml.test.test_segment)
TimedSynapticInput (class in neuroml.nml.nml)
to_neuroml_morphology() (neuroml.arraymorph.ArrayMorphology method)
to_root() (neuroml.arraymorph.ArrayMorphology method)
TransientPoissonFiringSynapse (class in neuroml.nml.nml)
V
valid_ids() (neuroml.arraymorph.ArrayMorphology property)
valid_morphology() (neuroml.arraymorph.ArrayMorphology property)
validate_neuroml2() (in module neuroml.utils)
vertex() (neuroml.arraymorph.ArrayMorphology method)
VoltageClamp (class in neuroml.nml.nml)
VoltageClampTriple (class in neuroml.nml.nml)
W
write() (neuroml.writers.ArrayMorphWriter class method)
(neuroml.writers.JSONWriter class method)
(neuroml.writers.NeuroMLHdf5Writer class method)
(neuroml.writers.NeuroMLWriter class method)
write_to_mongodb() (neuroml.writers.JSONWriter class method)
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