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clads2_delayed.tppl

function clads2​

Main model function

model function clads2(tree: Tree, rho: Real) => Real[]

type Dists​

type Dists = Dists {
    gdist:      GammaDist,
    nigdist:    NormalInverseGammaDist
}

type DistsBool​

type DistsBool = DistsBool {
    d        : Dists,
    detected : Bool
}

type Globals​

type Globals = Globals {
    epsilon:    Real,
    rho:        Real
}

function isDetected​

Forward simulation determining whether a tree survives and is detected (sampled)

function isDetected(g: Globals, d: Dists, multiplier: Real, tBegin: Real) => DistsBool

function numTrialsUntilMRCADetection​

Get an estimate of the probability of the MRCA being detected under given parameter values

function numTrialsUntilMRCADetection(g: Globals, d: Dists, tRoot: Real, mMax: Int) => Int

type Params​

type Params = Params {
    d:          Dists,
    multiplier: Real
}

function simHiddenSpeciation​

Simulate hidden speciation along an observed branch

function simHiddenSpeciation(g: Globals, d: Dists, multiplier: Real, startTime: Real, endTime: Real) => Params

type alias Tree​

type alias Tree = ClockTree

function walk​

Simulate process along the observed tree

function walk(g: Globals, d: Dists, multiplier: Real, parentAge: Real, node: Tree) => Dists