New DD models#34

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TheoPannetier wants to merge 58 commits intodevelopfrom

Commits on Mar 29, 2021

extend conditions to more four-parameter DD models
Theo Pannetier
committed

Commits on Mar 30, 2021

clearer conditions
Theo Pannetier
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fix condition L176 + indent conditions
Theo Pannetier
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simpler rep() syntax for dd_loglik_rhs_precomp
Theo Pannetier
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unnested if statements
Theo Pannetier
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implemented new DD models in dd_loglik_rhs_precomp
Theo Pannetier
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Commits on Apr 3, 2021

syntax a bit more readable
Theo Pannetier
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new DD functions implemented in lambdamu
Theo Pannetier
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fix missed variable renaming
Theo Pannetier
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more indentation/spacing fixes
Theo Pannetier
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both_rates_vary set as a separate function
Theo Pannetier
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new DD models implemented for DD sim
Theo Pannetier
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Commits on Apr 5, 2021

test new ddmodels behave as expected
Theo Pannetier
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subsitute par alpha for r (fix issue when r == Inf) and implement new DD models in dd_lamuN()
Theo Pannetier
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Commits on Apr 8, 2021

shortcut function for Kprime
Theo Pannetier
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renamed test file so it runs last
Theo Pannetier
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both_rates_vary doc
Theo Pannetier
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reworked syntax for more clarity, additional parameter control for new models
Theo Pannetier
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test input parameter values
Theo Pannetier
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Commits on Apr 10, 2021

test ddmodel parameters
Theo Pannetier
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Commits on Apr 15, 2021

interrupt ODE integration if any prob is NA; cleaner verbose
Theo Pannetier
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Commits on Apr 23, 2021

fix misspecified model number
Theo Pannetier
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Commits on Apr 27, 2021

fix both_rates_vary doc
Theo Pannetier
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Commits on Jun 29, 2021

update doc to include new DD models
Theo Pannetier
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two new DD models mixing power and exponential functions
Theo Pannetier
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Commits on Jun 30, 2021

update DD model tests
Theo Pannetier
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update both_rates_vary to include new DD models
Theo Pannetier
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fix variable name
Theo Pannetier
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Commits on Sep 10, 2021

merge from develop
Theo Pannetier
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fix doc
Theo Pannetier
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fix unmatched args in tests and missing methode in dd_loglik2
Theo Pannetier
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rm purrr dependency
Theo Pannetier
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check new-ddmodels branch on GHA
Théo Pannetier
authored
fix some bits I missed in the last merge
Theo Pannetier
committed
Merge branch 'new-ddmodels' of https://github.com/rsetienne/DDD into new-ddmodels
Theo Pannetier
committed

Commits on Sep 23, 2021

changed name of parameter alpha to phi
Theo Pannetier
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Commits on Sep 27, 2021

rewrote exponential DD models to make the exponential term visible
Theo Pannetier
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rewrote power and expo models to show rate at equilibrium
Theo Pannetier
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Commits on Sep 30, 2021

ddmodels 1 and 3 now tested as well
Theo Pannetier
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Commits on Nov 8, 2021

some automatic Rcpp addition I suppose
Theo Pannetier
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Commits on Nov 15, 2021

Reduce lx when diversification rate drops below -100
rsetienne
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Commits on Nov 16, 2021

Merge branch 'new-ddmodels' of https://github.com/rsetienne/DDD into new-ddmodels
Theo Pannetier
committed

Commits on Nov 17, 2021

Changed from difference to ratio
rsetienne
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Merge branch 'new-ddmodels' of https://github.com/rsetienne/DDD into new-ddmodels
Theo Pannetier
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version increment to track which solution is being used; 5.0.1 is on new-ddmodels-tmp
Theo Pannetier
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Commits on Jan 19, 2022

= -> <-
rsetienne
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ddep 2.4
rsetienne
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Commits on Jan 21, 2022

0.1 -> 10 for ddmodel 2.4
rsetienne
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Commits on Jan 24, 2022

Exception for la = 0 or K = 0
rsetienne
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lx defined later
rsetienne
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Commits on Dec 1, 2022

Merge branch 'develop' into new-ddmodels
Théo Pannetier
authored

Commits on Dec 5, 2022

rm outdated commented line
Théo Pannetier
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revert changes to tests I can't recall making for a good reason
Theo Pannetier
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Merge branch 'new-ddmodels' of https://github.com/rsetienne/DDD into new-ddmodels
Theo Pannetier
committed

Commits on Dec 7, 2022

fix doc + new helper to convert ddmodel to description
Theo Pannetier
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Commits on Feb 7, 2023

Merge branch 'develop' into new-ddmodels
rsetienne
authored

Commits on Feb 8, 2023

Merge branch 'develop' into new-ddmodels
rsetienne
authored

Commits on Nov 26, 2024

Merge branch 'develop' into new-ddmodels
rsetienne
authored