Performs the second nodal reconstructions for characters with inapplicability.

Updates the nodal sets that had ambiguous unions with the inapplicable state and calculates steps involving applicable states after the update. Because this function needs to be fairly high-performance, it does not do much checking for parameter validity, thus unsafe usage of this function might not be caught. It is up to calling functions to ensure that the appropriate parameters have been set before use.

Usage

mpl_second_down_recon(node_id, left_id, right_id, morphyobj)

Arguments

node_id

The index of the node being reconstructed.

left_id

The index of the left descendant.

right_id

The index of the right descendant.

morphyobj

An instance of the Morphy object.

Value

The integral parsimony length (right now)

See also

Other Morphy API functions: GapHandler(), MorphyErrorCheck(), MorphyWeights(), PhyDat2Morphy(), SingleCharMorphy(), UnloadMorphy(), is.morphyPtr(), mpl_apply_tipdata(), mpl_attach_rawdata(), mpl_attach_symbols(), mpl_delete_Morphy(), mpl_delete_rawdata(), mpl_first_down_recon(), mpl_first_up_recon(), mpl_get_charac_weight(), mpl_get_gaphandl(), mpl_get_num_charac(), mpl_get_num_internal_nodes(), mpl_get_numtaxa(), mpl_get_symbols(), mpl_init_Morphy(), mpl_new_Morphy(), mpl_second_up_recon(), mpl_set_charac_weight(), mpl_set_num_internal_nodes(), mpl_set_parsim_t(), mpl_translate_error(), mpl_update_lower_root(), mpl_update_tip(), summary.morphyPtr()

Author

Thomas Guillerme