NAMESPACE

# Generated by roxygen2: do not edit by hand

export(CHEtransform)
export(EHEtransform)
export(Q2model)
export(amaED)
export(amaED_phi)
export(amaSMM)
export(amaSMM_2Q)
export(amalgamate_deps)
export(amalgamate_deps_gen)
export(amalgamated_fits_corHMM)
export(amalgamated_simmaps_corHMM)
export(as_matrixRB)
export(auto_dep_matrix)
export(build.chars)
export(build.matrix)
export(comb2matrices)
export(combNmatrices)
export(dep_matrix)
export(dropDependentTraits)
export(extract.chars)
export(filter_coverage)
export(get_graph_matrix)
export(get_phi)
export(initQ)
export(init_binary_matrix)
export(init_char_matrix)
export(is_slumpable)
export(makeTraitTree)
export(ontologyHeatMap)
export(print_coverage)
export(process.ontofast)
export(recode_td)
export(recode_traits)
export(recode_traits_gen)
export(remove_indirect)
export(strip_IRI)
import(ape)
import(dplyr)
import(grDevices)
import(graphics)
import(ontologyIndex)
import(phytools)
import(utils)
importFrom(MASS,fractions)
importFrom(dplyr,"%>%")
importFrom(igraph,V)
importFrom(igraph,clusters)
importFrom(igraph,ego)
importFrom(igraph,graph.adjacency)
importFrom(igraph,graph.edgelist)
importFrom(igraph,make_graph)
importFrom(igraph,topo_sort)
importFrom(igraph,vcount)
importFrom(numbers,mLCM)
importFrom(phytools,force.ultrametric)
importFrom(stats,as.dist)
importFrom(stats,dist)
importFrom(stats,hclust)
importFrom(stats,na.omit)
importFrom(stats,setNames)