Comments (11)
@richelbilderbeek given the function format_to_data_data
is not longer in the package, that we stop development of plot_daisie_data. What do you think?
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[edit: removed my confused comment]
Hmmm, I am getting confused here. I understood the structure called daisie_data
contains the info to make nice plots of the islands, for both the observed and ideal data.
What is the name of data structure I can use to plot the history of the island histories, for the observed and ideal data?
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I thought the new plan was:
island_tbl
toideal_island_tbl
andempirical_island_tbl
ideal_island_tbl
is plotted byplot_ideal_island_tbl
empirical_island_tbl
is plotted byplot_empirical_island_tbl
Would be the only plotting functions for the plotting the island?
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Hi @joshwlambert, thanks for clearing that one up!
I still would enjoy plotting the DAISIE data: it allows one to verify that the conversion from DAISIEmainland data to DAISIE has gone
However, I will focus on plotting the ideal_island_tbl
and empirical_island_tbl
first (i.e. #51)
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This is something for after the next release. I will ruthlessly close it for now.
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Nope, it appears this is what #59 actually depends on; to be able to plot a daisie_data
, so I reopen this one, as I am now working on it :-)
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Beautiful in a base-functionality-appreciated way:
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More clades works great too:
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An example when the two data sets differ:
test_that("much branching", {
set.seed(
1018,
kind = "Mersenne-Twister",
normal.kind = "Inversion",
sample.kind = "Rejection"
)
daisie_mainland_data <- sim_island_with_mainland(
total_time = 1,
m = 10,
island_pars = c(1, 1, 10, 0.1, 1),
mainland_ex = 1,
mainland_sample_prob = 1,
mainland_sample_type = "complete",
replicates = 1,
verbose = FALSE
)
plot_daisie_mainland_data(daisie_mainland_data, replicate_index = 1)
})
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Done!
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Related Issues (20)
- Remove link to Tidyverse coding standard? HOT 1
- Write read_results function
- change plotting functions to use results and not read the results in the plotting function
- Finish plot_island_tbl on tree_plots branch HOT 7
- fix the build on fix_check branch HOT 1
- Check whether island_to_table, ideal_island_to_table and empirical_island_to_table can be deleted
- add labels argument to plots
- Write function to create `ideal_island_tbl` and `emperical_island_tbl` from `island_tbl` HOT 6
- Resurrect island_to_tables and daisie_data_to_tables for V2? HOT 3
- add tidyverse style check to tests HOT 1
- Add `plot_daisie_mainland_data` HOT 4
- Color clades based on stac_str HOT 1
- Use time before present + plot recolonisations HOT 7
- Changing `plot_mainland` x-axis to time before present HOT 8
- plot_daisie_mainland_data: reverse time axis HOT 5
- Plot all recolonisations in 'plot_daisie_mainland_data' HOT 23
- Plot branches connected correctly by `plot_daisie_data` HOT 5
- No branching for colonist that underwent anagenesis? HOT 2
- Numerical integrator use HOT 1
- Island plot legend HOT 1
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