Implements macroevolutionary analyses on phylogenetic trees
| Package: | RPANDA |
| Type: | Package |
| Version: | 1.9 |
| Date: | 2020-09-14 |
| License: | GPL (>= 2) |
More information on the RPANDA package and worked examples can be found in Morlon et al. (2016)
Morlon, H., Potts, M.D., Plotkin, J.B. (2010) Inferring the dynamics of diversification: a coalescent approach, PLoS B 8(9): e1000493
Morlon, H., Parsons, T.L. and Plotkin, J.B. (2011) Reconciling molecular phylogenies with the fossil record, Proc Nat Acad Sci 108: 16327-16332
Morlon, H., Kemps, B., Plotkin, J.B., Brisson, D. (2012) Explosive radiation of a bacterial species group, Evolution 66: 2577-2586
Condamine, F.L., Rolland, J., and Morlon, H. (2013) Macroevolutionary perspectives to environmental change, Eco Lett 16: 72-85
Morlon, H. (2014) Phylogenetic approaches for studying diversification, Eco Lett 7: 508-525
Manceau, M., Lambert, A., Morlon, H. (2015) Phylogenies support out-of-equilibrium models of biodiversity, Eco Lett 18: 347-356
Lewitus, E., Morlon, H. (2016) Characterizing and comparing phylogenies from their Laplacian spectrum, Syst Biol 65: 495-507
Morlon, H., Lewitus, E., Condamine, F.L., Manceau, M., Clavel, J., Drury, J. (2016) RPANDA: an R package for macroevolutionary analyses on phylogenetic trees, MEE 7: 589-597
Drury, J., Clavel, J., Manceau, M., Morlon, H. (2016) Estimating the Effect of Competition on Trait Evolution Using Maximum Likelihood Inference, Syst Biol 65: 700-710
Manceau, M., Lambert, A., Morlon, H. (2017) A Unifying Comparative Phylogenetic Framework Including Traits Coevolving Across Interacting Lineages, Syst Biol 66: 551-568
Clavel, J., Morlon, H. (2017) Accelerated body size evolution during cold climatic periods in the Cenozoic, Proc Nat Acad Sci 114: 4183-4188
Drury, J., Tobias, J., Burns, K., Mason, N., Shultz, A., and Morlon, H. (2018) Contrasting impacts of competition on ecological and social trait evolution in songbirds. PLOS Biolog 16: e2003563
Clavel, J., Aristide, L., Morlon, H. (2019). A Penalized Likelihood framework for high-dimensional phylogenetic comparative methods and an application to new-world monkeys brain evolution. Syst Biol 68: 93-116
Maliet, O., Hartig, F., Morlon, H. (2019). A model with many small shifts for estimating species-specific diversification rates. Nature Ecol Evol 3: 1086-1092
Condamine, F.L., Rolland, J., Morlon, H. (2019) Assessing the causes of diversification slowdowns: temperature-dependent and diversity-dependent models receive equivalent support Ecology Letters 22: 1900-1912
Aristide, L., Morlon, H. (2019) Understanding the effect of competition during evolutionary radiations: an integrated model of phenotypic and species diversification Ecology Letters 22: 2006-2017
Billaud, O., Moen, D. S., Parsons, T. L., Morlon, H. (2019) Estimating Diversity Through Time using Molecular Phylogenies: Old and Species-Poor Frog Families are the Remnants of a Diverse Past Systematic Biology 69: 363<U+2013>383
Lewitus, E., Aristide, L., Morlon, H. (2019) Characterizing and Comparing Phylogenetic Trait Data from Their Normalized Laplacian Spectrum Systematic Biology 69: 234<U+2013>248
Maliet, O., Loeuille, N., Morlon, H. (2020) An individual-based model for the eco-evolutionary emergence of bipartite interaction networks Ecology Letters