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Diversification models

Constant rate birth-death

  • Model file: models/phylo/crbd.tppl

  • Example input data: models/phylo/crbd.json

  • Brief info: The model simulates the constant rate birth-death process over a phylogenetic tree. The speciation rate is returned.

ClaDS

  • Model file: models/phylo/clads.tppl

  • Example input data: models/phylo/clads.json

  • Brief info: The model simulates the ClaDS process over a phylogenetic tree. This implementation of the ClaDS model is a simple version that returns the speciation rate λ; however, it does not return the branch-specific rates.

  • Reference: Maliet, O., Hartig, F. & Morlon, H. A model with many small shifts for estimating species-specific diversification rates. Nat Ecol Evol 3, 1086–1092 (2019). https://doi.org/10.1038/s41559-019-0908-0