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DAISIE 4.2.0
Important bugfixes on estimation when data contains a lineage or a clade for
which (see stac_key vignette for details on each case):
The divergence time is unknown but known to have occurred after a
specific point in time in the island's existence.
The divergence time is unknown but known to have occurred before a
specific point in time in the island's existence (usually known when dated
population level phylogenetic data is available).
Improve and finalise the continental island estimation scenario, when there
are initially species present on the island on inception.
Improve tests related to the two points above.
Remove DAISIE time dependent estimation code for now to ease work on the remaining
code. Development will proceed separately.
Rate computations in simulation are first calculated per lineage, to then be
calculated per island. This will be needed for time dependent estimation later on.
Improve zenodo metadata.
Add methode = "odeint::adams_bashforth_moulton_X" to the list of available
numeric integrators for parameter estimation.