Rev Language Reference
fnInferAncestralPopSize
Usage
fnInferAncestralPopSize(RealPos rootAge/originAge, RealPos lambda, RealPos mu, RealPos psi, RealPos omega, Probability rho, Probability removalPr, Natural maxHiddenLin, String condition, Real[] occurrence_ages, Real[] time_points, TimeTree timeTree, RealPos[] timeline, Bool verbose)
Arguments
| rootAge/originAge : | RealPos (pass by const reference) |
| Start age of the process. | |
| lambda : | RealPos (pass by const reference) |
| Speciation/birth rate(s). | |
| mu : | RealPos (pass by const reference) |
| Extinction/death rate(s). | |
| Default : 0 | |
| psi : | RealPos (pass by const reference) |
| Serial sampling rate(s). | |
| Default : 0 | |
| omega : | RealPos (pass by const reference) |
| Occurrence sampling rate(s). | |
| Default : 0 | |
| rho : | Probability (pass by const reference) |
| Sampling probability at present time. | |
| Default : 1 | |
| removalPr : | Probability (pass by const reference) |
| Probabilit(y|ies) of death upon sampling (treatment). | |
| Default : 0 | |
| maxHiddenLin : | Natural (pass by const reference) |
| Maximum number of hidden lineages (algorithm accuracy). | |
| Default : 30 | |
| condition : | String (pass by value) |
| Condition of the process on the survival of either 1 (survival) or 2 lineages (survival2) to the present. | |
| Default : none | |
| Options : survival|survival2 | |
| occurrence_ages : | Real[] (pass by const reference) |
| Vector of occurrence ages. | |
| time_points : | Real[] (pass by const reference) |
| Time points at which we compute the density. | |
| timeTree : | TimeTree (pass by value) |
| Tree for which ancestral pop. size has to be computed. | |
| Default : NULL | |
| timeline : | RealPos[] (pass by const reference) |
| Rate interval change times of the piecewise constant process. | |
| Default : NULL | |
| verbose : | Bool (pass by const reference) |
| If true displays warnings and information messages. | |
| Default : FALSE |
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