Finish plot_island_tbl on tree_plots branch

[richelbilderbeek]

Just make the tests in test-plot_island_tbl.R produce beautiful tables.

No need to separate between ideal and empircal data yet, this depends on #55.

[richelbilderbeek]

Current state:

[richelbilderbeek]

Some info from Josh:

• The col_t given to each cladogenetic species (spec_type == “C”) is the same, it is the time clade colonised
• The branch_t of the first cladogenetic species in the clade is the same as the col_t, the branch_t of the other species in the clade is the time they branched
• The branch_code is different from mainland_clade, species that don’t speciate have branch_code == NA.
• A cladogenetic speciation event causes one new row to be added, unlike mainland_clade where two rows are added

[richelbilderbeek]

@joshwlambert:

• is this picture correct? That is, the green lines should become the sketched orange lines, right?
• Am I correct that no extinction events are present in island_tbl?

I'd enjoy to be corrected here :-)

[joshwlambert]

@richelbilderbeek the figure is correct. The two green lines should form the clade you have drawn on the left-hand side.

[richelbilderbeek]

@joshwlambert great that the figure is correct, with some luck I will finish it today.

AFAICS, I never get info on clades that went extinct before the present. Am I correct [1]?

• [1] Whether they should be in is another question altogether. Let's talk after the next release :-)

[joshwlambert]

@richelbilderbeek the island_tbl only contains reconstructed information so no extinct species are kept.

[richelbilderbeek]

For now, this Issue is on hold until after the next release. I will close it for now.