# Generated by roxygen2: do not edit by hand

export(aggregate_mapped_genes)
export(all_genes)
export(all_species)
export(convert_orthologs)
export(create_background)
export(format_species)
export(get_silhouettes)
export(infer_species)
export(map_genes)
export(map_orthologs)
export(map_species)
export(plot_orthotree)
export(prepare_tree)
export(report_orthologs)
import(Matrix)
import(data.table)
import(homologene)
importFrom(Matrix,Matrix)
importFrom(Matrix,colSums)
importFrom(Matrix,sparse.model.matrix)
importFrom(Matrix,t)
importFrom(babelgene,orthologs)
importFrom(babelgene,species)
importFrom(data.table,":=")
importFrom(data.table,`:=`)
importFrom(data.table,as.data.table)
importFrom(data.table,data.table)
importFrom(data.table,fread)
importFrom(data.table,fwrite)
importFrom(data.table,rbindlist)
importFrom(data.table,setcolorder)
importFrom(data.table,setnames)
importFrom(dplyr,all_of)
importFrom(dplyr,any_vars)
importFrom(dplyr,arrange)
importFrom(dplyr,desc)
importFrom(dplyr,filter_at)
importFrom(dplyr,mutate)
importFrom(dplyr,n_distinct)
importFrom(dplyr,rename)
importFrom(dplyr,select)
importFrom(ggpubr,stat_cor)
importFrom(ggtree,"%<+%")
importFrom(gprofiler2,gconvert)
importFrom(gprofiler2,gorth)
importFrom(homologene,homologene)
importFrom(jsonlite,fromJSON)
importFrom(magrittr,extract)
importFrom(methods,as)
importFrom(methods,is)
importFrom(methods,show)
importFrom(parallel,mclapply)
importFrom(patchwork,plot_annotation)
importFrom(stats,as.formula)
importFrom(stats,complete.cases)
importFrom(stats,contrasts)
importFrom(stats,na.omit)
importFrom(stats,na.pass)
importFrom(stats,setNames)
importFrom(stats,terms)
importFrom(tools,R_user_dir)
importFrom(utils,capture.output)
importFrom(utils,data)
importFrom(utils,getFromNamespace)
importFrom(utils,setTxtProgressBar)
importFrom(utils,write.csv)
