Description Usage Arguments Value See Also
Internal function that updates the all the rates and max extinction horizon at time t.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 |
timeval |
A numeric with the current time of simulation |
totaltime |
A numeric with the total time of simulation |
gam |
A numeric with the per capita immigration rate |
laa |
A numeric with the per capita anagenesis rate |
lac |
A numeric with the per capita cladogenesis rate |
mu |
extinction rate |
hyper_pars |
A numeric vector for hyperparameters for the rate calculations:
|
area_pars |
a named list containing area and sea level parameters as
created by
|
dist_pars |
a numeric for the distance from the mainland. |
ext_pars |
A numeric vector:
|
island_ontogeny |
A string describing the type of island ontogeny.
Can be |
sea_level |
a numeric describing the type of sea level. |
extcutoff |
A numeric with the cutoff for extinction rate preventing it from being too large and slowing down simulation. Should be big. |
K |
A numeric with K (clade-specific carrying capacity) |
num_spec |
a numeric with the current number of species. |
num_immigrants |
a numeric with the current number of non-endemic species (a.k.a non-endemic species). |
mainland_n |
A numeirc with the total number of species present in the mainland |
trait_pars |
A named list containing diversification rates considering two trait states:
|
island_spec |
Matrix with current state of simulation containing number of species. |
a named list with the updated effective rates.
Other rate calculations:
DAISIE_plot_area()
,
get_ana_rate()
,
get_ext_rate()
,
get_immig_rate()
,
island_area_vector()
,
island_area()
,
update_max_rates()
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