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epydemic
Index
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Index
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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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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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R
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S
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T
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U
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V
_
__contains__() (epydemic.DrawSet method)
__getitem__() (epydemic.ProcessSequence method)
__iter__() (epydemic.DrawSet method)
(epydemic.NetworkGenerator method)
__len__() (epydemic.DrawSet method)
__next__() (epydemic.NetworkGenerator method)
_generate() (epydemic.CorePeripheryNetwork method)
(epydemic.ModularNetwork method)
(epydemic.NetworkGenerator method)
A
add() (epydemic.AddDelete method)
(epydemic.DrawSet method)
addCompartment() (epydemic.CompartmentedModel method)
AddDelete (class in epydemic)
addEdge() (epydemic.CompartmentedModel method)
(epydemic.Process method)
addEdgesFrom() (epydemic.Process method)
addEventPerElement() (epydemic.Process method)
addFixedRateEvent() (epydemic.Process method)
addHandler() (epydemic.CompartmentedEdgeLocus method)
(epydemic.Locus method)
addition-deletion process
addLocus() (epydemic.Dynamics method)
(epydemic.Process method)
addNewNode() (epydemic.AddDelete method)
addNode() (epydemic.AddDelete method)
(epydemic.CompartmentedModel method)
(epydemic.Process method)
addNodesFrom() (epydemic.Process method)
affect() (epydemic.Opinion method)
allProcesses() (epydemic.Process method)
(epydemic.ProcessSequence method)
atEquilibrium() (epydemic.Opinion method)
(epydemic.ProcessSequence method)
B
B (epydemic.PulseCoupledOscillator attribute)
BANetwork (class in epydemic)
BondPercolation (class in epydemic)
build() (epydemic.AddDelete method)
(epydemic.CompartmentedModel method)
(epydemic.Monitor method)
(epydemic.Opinion method)
,
[1]
(epydemic.Percolate method)
(epydemic.Process method)
(epydemic.ProcessSequence method)
(epydemic.PulseCoupledOscillator method)
(epydemic.SEIR method)
(epydemic.ShuffleK method)
(epydemic.SIR method)
(epydemic.SIR_FixedRecovery method)
(epydemic.SIR_VariableInfection method)
(epydemic.SIRS method)
(epydemic.SIS method)
(epydemic.SIS_FixedRecovery method)
(epydemic.SIvR method)
bumpPhase() (epydemic.PulseCoupledOscillator method)
C
cascade() (epydemic.PulseCoupledOscillator method)
changeCompartment() (epydemic.CompartmentedModel method)
changeInitialCompartment() (epydemic.CompartmentedModel method)
clustering
community
COMPARTMENT (epydemic.CompartmentedModel attribute)
compartment() (epydemic.CompartmentedModel method)
compartmented model of disease
CompartmentedEdgeLocus (class in epydemic)
CompartmentedLocus (class in epydemic)
CompartmentedModel (class in epydemic)
CompartmentedNodeLocus (class in epydemic)
compartments
compartments() (epydemic.CompartmentedLocus method)
(epydemic.CompartmentedModel method)
component
COMPONENTS (epydemic.NetworkStatistics attribute)
components() (epydemic.NewmanZiff method)
componentSize() (epydemic.NewmanZiff method)
contact tree
container() (epydemic.Process method)
continuous time
CORE_LINK (epydemic.ModularNetwork attribute)
CorePeripheryNetwork (class in epydemic)
coreSubNetwork() (epydemic.CorePeripheryNetwork static method)
(epydemic.ModularNetwork static method)
COUPLING (epydemic.PulseCoupledOscillator attribute)
currentSimulationTime() (epydemic.Dynamics method)
(epydemic.Process method)
CUTOFF (epydemic.PLCNetwork attribute)
D
DEGREE (epydemic.AddDelete attribute)
degree distribution
delete() (epydemic.AddDelete method)
DELTA (epydemic.Monitor attribute)
discard() (epydemic.DrawSet method)
discrete time
do() (epydemic.BondPercolation method)
(epydemic.SitePercolation method)
(epydemic.StochasticDynamics method)
(epydemic.SynchronousDynamics method)
draw() (epydemic.DrawSet method)
DrawSet (class in epydemic)
dynamical state
Dynamics (class in epydemic)
dynamics() (epydemic.Process method)
,
[1]
E
EFFICACY (epydemic.SIvR attribute)
empty() (epydemic.DrawSet method)
enterHandler() (epydemic.CompartmentedEdgeLocus method)
(epydemic.Locus method)
epidemic threshold
ERNetwork (class in epydemic)
event
event function
eventFired() (epydemic.Dynamics method)
eventRateDistribution() (epydemic.Dynamics method)
EVENTS (epydemic.Dynamics attribute)
experimentalResults() (epydemic.Dynamics method)
EXPONENT (epydemic.PLCNetwork attribute)
EXPOSED (epydemic.SEIR attribute)
F
fire() (epydemic.PulseCoupledOscillator method)
FIRED (epydemic.PulseCoupledOscillator attribute)
fired() (epydemic.PulseCoupledOscillator method)
FIRING_NODES (epydemic.PulseCoupledOscillator attribute)
FIRING_TIMES (epydemic.PulseCoupledOscillator attribute)
FixedNetwork (class in epydemic)
fixedRateEventDistribution() (epydemic.Dynamics method)
(epydemic.Process method)
G
GCC (epydemic.BondPercolation attribute)
(epydemic.SitePercolation attribute)
generate() (epydemic.NetworkGenerator method)
generating functions
get() (epydemic.ProcessSequence method)
getCompartment() (epydemic.CompartmentedModel method)
getFiringTime() (epydemic.PulseCoupledOscillator method)
getPhase() (epydemic.PulseCoupledOscillator method)
getState() (epydemic.PulseCoupledOscillator method)
gf_ba() (in module epydemic.gf)
gf_er() (in module epydemic.gf)
gf_from_coefficient_function() (in module epydemic.gf)
gf_from_coefficients() (in module epydemic.gf)
gf_from_network() (in module epydemic.gf)
gf_from_series() (in module epydemic.gf)
gf_plc() (in module epydemic.gf)
gf_powerlaw() (in module epydemic.gf)
giant connected component
Gillespie simulation
GP (epydemic.Opinion attribute)
I
IGNORANT (epydemic.Opinion attribute)
infect() (epydemic.SEIR method)
(epydemic.SIR method)
(epydemic.SIR_FixedRecovery method)
(epydemic.SIS method)
(epydemic.SIS_FixedRecovery method)
(epydemic.SIvR method)
infectAsymptomatic() (epydemic.SEIR method)
INFECTED (epydemic.SEIR attribute)
(epydemic.SIR attribute)
(epydemic.SIS attribute)
INFECTED_N (epydemic.SIvR attribute)
INFECTED_V (epydemic.SIvR attribute)
INFECTION_TIME (epydemic.SIR_FixedRecovery attribute)
(epydemic.SIS_FixedRecovery attribute)
INFECTIVITY (epydemic.SIR_VariableInfection attribute)
initialCompartmentDistribution() (epydemic.CompartmentedModel method)
initialCompartments() (epydemic.CompartmentedModel method)
initialInfectivities() (epydemic.SIR_VariableInfection method)
initialiseEventTaps() (epydemic.Dynamics method)
initialisePhases() (epydemic.PulseCoupledOscillator method)
inLargestComponent() (epydemic.NewmanZiff method)
instanceId() (epydemic.Process method)
K
KDIST (epydemic.NetworkStatistics attribute)
KMEAN (epydemic.ERNetwork attribute)
(epydemic.NetworkStatistics attribute)
L
largest connected component
largestComponentSize() (epydemic.NewmanZiff method)
LCC (epydemic.NetworkStatistics attribute)
leaveHandler() (epydemic.CompartmentedEdgeLocus method)
(epydemic.Locus method)
loci() (epydemic.Dynamics method)
(epydemic.Process method)
lociForProcess() (epydemic.Dynamics method)
locus
Locus (class in epydemic)
locus() (epydemic.Dynamics method)
(epydemic.Process method)
M
M (epydemic.BANetwork attribute)
(epydemic.NetworkStatistics attribute)
markHit() (epydemic.CompartmentedModel method)
markOccupied() (epydemic.CompartmentedModel method)
matches() (epydemic.CompartmentedEdgeLocus method)
maximumTime() (epydemic.Process method)
(epydemic.ProcessSequence method)
mesostructure
microstructure
modularity
ModularNetwork (class in epydemic)
Monitor (class in epydemic)
motif
N
N (epydemic.BANetwork attribute)
(epydemic.ERNetwork attribute)
(epydemic.NetworkStatistics attribute)
(epydemic.PLCNetwork attribute)
N_core (epydemic.CorePeripheryNetwork attribute)
(epydemic.ModularNetwork attribute)
N_per (epydemic.CorePeripheryNetwork attribute)
N_sat (epydemic.ModularNetwork attribute)
name() (epydemic.Locus method)
network generator
network() (epydemic.NetworkExperiment method)
(epydemic.Process method)
NetworkExperiment (class in epydemic)
NetworkGenerator (class in epydemic)
networkGenerator() (epydemic.NetworkExperiment method)
NetworkStatistics (class in epydemic)
NewmanZiff (class in epydemic)
newNodeName() (epydemic.AddDelete method)
nextPendingEvent() (epydemic.Dynamics method)
nextPendingEventBefore() (epydemic.Dynamics method)
nextPendingEventTime() (epydemic.Dynamics method)
NODE_EVENT_ID (epydemic.PulseCoupledOscillator attribute)
NODES (epydemic.AddDelete attribute)
nodeVaccinated() (epydemic.SIvR method)
nodeVaccinatedAt() (epydemic.SIvR method)
normalisePhase() (epydemic.PulseCoupledOscillator method)
O
OBSERVATIONS (epydemic.Monitor attribute)
observe() (epydemic.Monitor method)
OCCUPIED (epydemic.CompartmentedModel attribute)
OCCUPY (epydemic.BondPercolation attribute)
(epydemic.SitePercolation attribute)
,
[1]
occupy() (epydemic.Percolate method)
Opinion (class in epydemic)
ORIGIN (epydemic.CorePeripheryNetwork attribute)
(epydemic.ModularNetwork attribute)
P
P (epydemic.BondPercolation attribute)
(epydemic.SitePercolation attribute)
P_ADD (epydemic.AddDelete attribute)
P_AFFECT (epydemic.Opinion attribute)
P_AFFECTED (epydemic.Opinion attribute)
P_DELETE (epydemic.AddDelete attribute)
P_EXPOSED (epydemic.SEIR attribute)
P_INFECT (epydemic.SIR attribute)
(epydemic.SIS attribute)
P_INFECT_ASYMPTOMATIC (epydemic.SEIR attribute)
P_INFECT_SYMPTOMATIC (epydemic.SEIR attribute)
P_INFECTED (epydemic.SIR attribute)
(epydemic.SIS attribute)
P_RECOVER (epydemic.SIS attribute)
P_REMOVE (epydemic.SEIR attribute)
(epydemic.SIR attribute)
P_RESUSCEPT (epydemic.SIRS attribute)
P_STIFLE (epydemic.Opinion attribute)
P_SYMPTOMS (epydemic.SEIR attribute)
P_VACCINATE (epydemic.Vaccinate attribute)
pendingEventTime() (epydemic.Dynamics method)
(epydemic.Process method)
Percolate (class in epydemic)
percolate() (epydemic.Percolate method)
percolation
percolation threshold
perElementEventDistribution() (epydemic.Dynamics method)
(epydemic.Process method)
(epydemic.SIR_VariableInfection method)
perElementEventRateDistribution() (epydemic.Dynamics method)
(epydemic.Process method)
PERIOD (epydemic.PulseCoupledOscillator attribute)
peripherySubNetwork() (epydemic.CorePeripheryNetwork static method)
PHASE_PRECISION (epydemic.PulseCoupledOscillator attribute)
PHASES (epydemic.PulseCoupledOscillator attribute)
phaseToState() (epydemic.PulseCoupledOscillator method)
PHI (epydemic.ERNetwork attribute)
PHI_core (epydemic.CorePeripheryNetwork attribute)
(epydemic.ModularNetwork attribute)
PHI_per (epydemic.CorePeripheryNetwork attribute)
PHI_sat (epydemic.ModularNetwork attribute)
PLCNetwork (class in epydemic)
posted event
postEvent() (epydemic.Dynamics method)
(epydemic.Process method)
postRepeatingEvent() (epydemic.Dynamics method)
(epydemic.Process method)
PPT (epydemic.Opinion attribute)
process
Process (class in epydemic)
process dynamics
process() (epydemic.Dynamics method)
(epydemic.Locus method)
processes() (epydemic.Process method)
(epydemic.ProcessSequence method)
processNames() (epydemic.ProcessSequence method)
ProcessSequence (class in epydemic)
PulseCoupledOscillator (class in epydemic)
R
recover() (epydemic.SIS method)
RECOVERED (epydemic.SIS attribute)
remove() (epydemic.DrawSet method)
(epydemic.SEIR method)
(epydemic.SIR method)
(epydemic.SIvR method)
REMOVED (epydemic.SEIR attribute)
(epydemic.SIR attribute)
removeEdge() (epydemic.CompartmentedModel method)
(epydemic.Process method)
removeEdgesFrom() (epydemic.Process method)
removeHandler() (epydemic.CompartmentedEdgeLocus method)
(epydemic.Locus method)
removeNode() (epydemic.AddDelete method)
(epydemic.CompartmentedModel method)
(epydemic.Process method)
removeNodesFrom() (epydemic.Process method)
report() (epydemic.NewmanZiff method)
reset() (epydemic.CompartmentedModel method)
(epydemic.Monitor method)
(epydemic.Process method)
(epydemic.ProcessSequence method)
results() (epydemic.CompartmentedModel method)
(epydemic.Monitor method)
(epydemic.NetworkStatistics method)
(epydemic.Process method)
(epydemic.ProcessSequence method)
(epydemic.PulseCoupledOscillator method)
RESUSCEPT (epydemic.SIRS attribute)
resuscept() (epydemic.SIRS method)
REWIRE_FRACTION (epydemic.ShuffleK attribute)
runId() (epydemic.Process method)
runPendingEvents() (epydemic.Dynamics method)
S
SAMPLE (epydemic.BondPercolation attribute)
(epydemic.SitePercolation attribute)
sample() (epydemic.NewmanZiff method)
SATELLITES (epydemic.ModularNetwork attribute)
satelliteSubNetwork() (epydemic.ModularNetwork static method)
SE (epydemic.SEIR attribute)
SEIR
(class in epydemic)
set() (epydemic.NetworkGenerator method)
setCompartment() (epydemic.CompartmentedModel method)
setContainer() (epydemic.Process method)
setCurrentSimulationTime() (epydemic.Dynamics method)
setDynamics() (epydemic.Process method)
setFiringTime() (epydemic.PulseCoupledOscillator method)
setMaximumTime() (epydemic.Process method)
(epydemic.ProcessSequence method)
setNetwork() (epydemic.Process method)
setNetworkGenerator() (epydemic.NetworkExperiment method)
setPhase() (epydemic.PulseCoupledOscillator method)
setProcess() (epydemic.Locus method)
setUp() (epydemic.AddDelete method)
(epydemic.BondPercolation method)
(epydemic.CompartmentedModel method)
(epydemic.Dynamics method)
(epydemic.NetworkExperiment method)
(epydemic.NewmanZiff method)
(epydemic.Process method)
(epydemic.ProcessSequence method)
(epydemic.PulseCoupledOscillator method)
(epydemic.SIR_FixedRecovery method)
(epydemic.SIR_VariableInfection method)
(epydemic.SIS_FixedRecovery method)
(epydemic.SitePercolation method)
ShuffleK (class in epydemic)
SI (epydemic.SEIR attribute)
(epydemic.SIR attribute)
(epydemic.SIS attribute)
simulationEnded() (epydemic.Dynamics method)
simulationStarted() (epydemic.Dynamics method)
SIR
(class in epydemic)
SIR_FixedRecovery (class in epydemic)
SIR_VariableInfection (class in epydemic)
SIRS (class in epydemic)
SIS
(class in epydemic)
SIS_FixedRecovery (class in epydemic)
SitePercolation (class in epydemic)
SIvR (class in epydemic)
skeletonise() (epydemic.CompartmentedModel method)
SLCC (epydemic.NetworkStatistics attribute)
SPREADER (epydemic.Opinion attribute)
stateToPhase() (epydemic.PulseCoupledOscillator method)
stateVariable() (epydemic.Process method)
stifle() (epydemic.Opinion method)
STIFLER (epydemic.Opinion attribute)
stochastic dynamics
stochastic event
stochastic process
StochasticDynamics (class in epydemic)
SUSCEPTIBLE (epydemic.SEIR attribute)
(epydemic.SIR attribute)
(epydemic.SIS attribute)
symptoms() (epydemic.SEIR method)
synchronisation
synchronised() (epydemic.PulseCoupledOscillator method)
synchronous dynamics
SynchronousDynamics (class in epydemic)
T
T (epydemic.Percolate attribute)
T_HITTING (epydemic.CompartmentedModel attribute)
T_INFECTED (epydemic.SIR_FixedRecovery attribute)
(epydemic.SIS_FixedRecovery attribute)
T_OCCUPIED (epydemic.CompartmentedModel attribute)
T_OFFSET (epydemic.SIvR attribute)
tearDown() (epydemic.Dynamics method)
(epydemic.NewmanZiff method)
(epydemic.Process method)
(epydemic.ProcessSequence method)
TIME (epydemic.Dynamics attribute)
timeSeriesForLocus() (epydemic.Monitor static method)
TIMESTEPS_WITH_EVENTS (epydemic.SynchronousDynamics attribute)
topology() (epydemic.BANetwork method)
(epydemic.CorePeripheryNetwork method)
(epydemic.ERNetwork method)
(epydemic.FixedNetwork method)
(epydemic.ModularNetwork method)
(epydemic.PLCNetwork method)
trackEdgesBetweenCompartments() (epydemic.CompartmentedModel method)
trackNodesInCompartment() (epydemic.CompartmentedModel method)
U
unoccupy() (epydemic.Percolate method)
unpostEvent() (epydemic.Dynamics method)
(epydemic.Process method)
V
Vaccinate (class in epydemic)
vaccinate() (epydemic.Vaccinate method)
vaccinateNode() (epydemic.SIvR method)
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