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Data summarizing the evolution of fake habitat data in Ponerinae ants using a 3-level factor as categorical trait

Source: R/datasets_doc.R
Ponerinae_cat_3lvl_data_old_calib.Rd

A list containing fake habitat data of Ponerinae ants mapped on the phylogeny, modeled with geiger::fitDiscrete. This object was obtained with prepare_trait_data(). This is NOT real biological/ecological data. They were designed for illustrative purposes only. The phylogeny used is also NOT a properly time-calibrated phylogeny. It uses an ill-designed old calibration for illustrative purposes.

Usage

data(Ponerinae_cat_3lvl_data_old_calib)

Format

A list with 5 elements.

Details

A list of five objects containing information on the evolution of fake habitat data in Ponerinae ants. This object was obtained with prepare_trait_data().

  • $densityMaps List of three objects of class "densityMap that contains a phylogenetic tree and associated mapping of probability to harbor a given state along branches. The list contains one "densityMap per state found in the tip_data (i.e., "arboreal", "subterranean", and "terricolous").

  • $trait_data_type Character string. Record the type of trait data. Here: "categorical".

  • $ace Numerical matrix that record the posterior probabilities of ancestral states (characters) estimates (ACE) at internal nodes. Rows are internal nodes. Columns are states (i.e., "large" and "small"). Values are posterior probabilities of each state per node.

  • $best_model_fit List that provides the output of the best fitting model (Here: ARD model).

  • $model_selection_df Data.frame that summarizes model comparisons used to select the best fitting model.

See also

prepare_trait_data()