Package index
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configure_python_backend()python_backend_status() - Configure and inspect the optional Python backend
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extract_ancestral() - Summarise posterior ancestral embeddings
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fit_embedding_bm() - Fit a Brownian Motion embedding model
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fit_embedding_ou() - Fit an Ornstein-Uhlenbeck embedding model
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load_embedding_array() - Load a NumPy array through the optional backend
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prepare_embedding_data() - Prepare embedding data for Stan
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reconstruct_ancestral_bm_r() - Reconstruct ancestral embeddings under Brownian Motion (pure-R reference)
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reconstruct_ancestral_ml_r() - Reconstruct ancestral embeddings with `phytools::fastAnc`
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reconstruct_ancestral_ou_r() - Reconstruct ancestral embeddings under Ornstein-Uhlenbeck (pure-R reference)
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run_bayesian_comparison() - Compare Brownian Motion and Ornstein-Uhlenbeck embedding fits
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simulate_bm_embedding_r() - Simulate BM evolution of an embedding along a phylogeny
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simulate_ou_embedding_r() - Simulate OU evolution of an embedding along a phylogeny