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_
__call__() (FourrierTools method)
__copy__() (MorphTree method)
(STree method)
__getitem__() (MorphTree method)
(STree method)
__iter__() (MorphTree method)
(STree method)
__len__() (STree method)
__str__() (STree method)
_convertLocArgToLocs() (MorphTree method)
_convertNodeArgToNodes() (MorphTree method)
_evaluateCompCriteria() (MorphTree method)
(PhysTree method)
_tryName() (MorphTree method)
A
addCurrent() (CompartmentTree method)
(PhysTree method)
addDoubleExpCurrent() (NeuronSimTree method)
addDoubleExpNMDASynapse() (NeuronSimTree method)
addDoubleExpSynapse() (NeuronSimTree method)
addExpSynapse() (NeuronSimTree method)
addIClamp() (NeuronSimTree method)
addLoc() (MorphTree method)
addNMDASynapse() (NeuronSimTree method)
addNodeWithParent() (STree method)
addNodeWithParentFromIndex() (STree method)
addOUClamp() (NeuronSimTree method)
addOUconductance() (NeuronSimTree method)
addOUReversal() (NeuronSimTree method)
addShunt() (NeuronSimTree method)
addSinClamp() (NeuronSimTree method)
addVClamp() (NeuronSimTree method)
asPassiveMembrane() (PhysTree method)
C
calcConductanceMatrix() (CompartmentTree method)
calcEEq() (NeuronSimTree method)
calcEigenvalues() (CompartmentTree method)
calcImpedanceMatrix() (CompartmentTree method)
(GreensTree method)
(NET method)
(SOVTree method)
calcImpMat() (NET method)
calcIZ() (NET method)
calcIZMatrix() (NET method)
calcSOVEquations() (SOVTree method)
calcSystemMatrix() (CompartmentTree method)
calcTotalImpedance() (NET method)
calcZF() (GreensTree method)
checkOrdered() (STree method)
checkPassive() (CompartmentFitter method)
child_nodes() (MorphNode property)
clearLocs() (MorphTree method)
colorXAxis() (MorphTree method)
CompartmentFitter (class in neat)
CompartmentNode (class in neat)
CompartmentTree (class in neat)
computeC() (CompartmentTree method)
computeDerivatives() (IonChannel method)
computeDerivativesConc() (IonChannel method)
computeFakeGeometry() (CompartmentTree method)
computeGChanFromImpedance() (CompartmentTree method)
computeGMC() (CompartmentTree method)
computeGSingleChanFromImpedance() (CompartmentTree method)
computeLinConc() (IonChannel method)
computeLinear() (IonChannel method)
computeLinearConc() (IonChannel method)
computeLinSum() (IonChannel method)
computeLinTerms() (SOVTree method)
computePOpen() (IonChannel method)
computeTauinf() (IonChannel method)
computeVarinf() (IonChannel method)
constructNET() (SOVTree method)
createCompartmentTree() (MorphTree method)
createNewTree() (MorphTree method)
createReducedNeuronModel() (in module neat.tools.simtools.neuron.neuronmodel)
createTreeGF() (CompartmentFitter method)
createTreeSOV() (CompartmentFitter method)
D
degreeOfNode() (STree method)
deleteModel() (NeuronSimTree method)
depthOfNode() (STree method)
determineSomaType() (MorphTree method)
distancesToBifurcation() (MorphTree method)
distancesToSoma() (MorphTree method)
distributeLocsOnNodes() (MorphTree method)
distributeLocsRandom() (MorphTree method)
distributeLocsUniform() (MorphTree method)
downBifurcationNode() (STree method)
E
environment
evalChannel() (CompartmentFitter method)
extendWithBifurcationLocs() (MorphTree method)
F
fitCapacitance() (CompartmentFitter method)
fitChannels() (CompartmentFitter method)
fitEEq() (CompartmentFitter method)
fitEL() (CompartmentTree method)
fitLeakCurrent() (PhysTree method)
fitModel() (CompartmentFitter method)
fitPassive() (CompartmentFitter method)
fitPassiveLeak() (CompartmentFitter method)
fitSynRescale() (CompartmentFitter method)
FourrierTools (class in neat)
ft() (FourrierTools method)
(Kernel method)
ftInv() (FourrierTools method)
G
gatherNodes() (STree method)
getBifurcationNodes() (STree method)
getChannelsInTree() (PhysTree method)
getCompartmentalization() (NET method)
getEEq() (CompartmentFitter method)
(CompartmentTree method)
getEquivalentLocs() (CompartmentTree method)
getImportantModes() (SOVTree method)
getKernels() (CompartmentFitter method)
getLeafLocinds() (MorphTree method)
getLeafLocNode() (NET method)
getLeafs() (MorphTree method)
(STree method)
getLocInds() (NET method)
getLocindsOnNode() (MorphTree method)
getLocindsOnNodes() (MorphTree method)
getLocindsOnPath() (MorphTree method)
getLocs() (MorphTree method)
getModeImportance() (SOVTree method)
getNearestLocinds() (MorphTree method)
getNearestNeighbourLocinds() (MorphTree method)
getNearestNeighbours() (STree method)
getNodeIndices() (MorphTree method)
getNodes() (MorphTree method)
(STree method)
getNodesInApicalSubtree() (MorphTree method)
getNodesInAxonalSubtree() (MorphTree method)
getNodesInBasalSubtree() (MorphTree method)
getNodesInSubtree() (STree method)
getReducedTree() (NET method)
getSubTree() (STree method)
getXCoords() (MorphTree method)
getXValues() (MorphTree method)
GreensNode (class in neat)
GreensTree (class in neat)
I
initModel() (NeuronSimTree method)
insertNode() (STree method)
IonChannel (class in neat)
isLeaf() (STree method)
isRoot() (STree method)
K
k_bar() (Kernel property)
Kernel (class in neat)
L
leafs() (MorphTree property)
(STree property)
M
makeXAxis() (MorphTree method)
module
neat.trees
MorphLoc (class in neat)
MorphNode (class in neat)
MorphTree (class in neat)
N
neat.trees
module
NET (class in neat)
NETNode (class in neat)
NeuronCompartmentTree (class in neat.tools.simtools.neuron.neuronmodel)
NeuronSimTree (class in neat.tools.simtools.neuron.neuronmodel)
nodes() (MorphTree property)
(STree property)
O
orderOfNode() (STree method)
P
pathBetweenNodes() (STree method)
pathBetweenNodesDepthFirst() (STree method)
pathLength() (MorphTree method)
pathToRoot() (STree method)
PhysNode (class in neat)
PhysTree (class in neat)
plot1D() (MorphTree method)
plot2DMorphology() (MorphTree method)
plotDendrogram() (CompartmentTree method)
(NET method)
plotKernels() (CompartmentFitter method)
plotMorphologyInteractive() (MorphTree method)
plotTrueD2S() (MorphTree method)
R
readSWCTreeFromFile() (MorphTree method)
removeCompTree() (MorphTree method)
removeExpansionPoints() (GreensTree method)
removeLocs() (MorphTree method)
removeNode() (STree method)
removeSingleNode() (STree method)
resetFitData() (CompartmentTree method)
resetIndices() (STree method)
root() (MorphTree property)
(STree property)
run() (NeuronSimTree method)
runFit() (CompartmentTree method)
S
setCompTree() (MorphTree method)
setCTree() (CompartmentFitter method)
setDefaultParams() (IonChannel method)
setEEq() (CompartmentFitter method)
(CompartmentTree method)
(PhysTree method)
setExpansionPoint() (GreensNode method)
setExpansionPoints() (CompartmentTree method)
setImpedance() (GreensTree method)
setLeakCurrent() (PhysTree method)
setNewLocInds() (NET method)
setNodeColors() (MorphTree method)
setP3D() (MorphNode method)
setPhysiology() (PhysTree method)
setSpikeTrain() (NeuronSimTree method)
setTreetype() (MorphTree method)
sisterLeafs() (STree method)
SNode (class in neat)
softRemoveNode() (STree method)
source directory
SOVNode (class in neat)
SOVTree (class in neat)
storeLocs() (MorphTree method)
STree (class in neat)
T
t() (Kernel method)
treetype() (MorphTree property)
U
uniqueLocs() (MorphTree method)
upBifurcationNode() (STree method)
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