NAMESPACE

# Generated by roxygen2: do not edit by hand

export(blast)
export(blast_best)
export(blast_rec)
export(check_annotation)
export(codon_aln)
export(dNdS)
export(diamond)
export(diamond_best)
export(diamond_rec)
export(divergence_map)
export(divergence_stratigraphy)
export(extract_features)
export(filter_dNdS)
export(generate_ortholog_tables)
export(generate_ortholog_tables_all)
export(import_ortholog_tables_all)
export(lnc_map_core_orthologs)
export(lnc_map_counts)
export(map_generator_dnds)
export(map_generator_lnc)
export(multi_aln)
export(orthofinder2)
export(orthofinder2_retrieve_core_orthologs)
export(orthologs)
export(orthologs_lnc)
export(pairwise_aln)
export(plot_diverse_homology_thresholds)
export(plot_diverse_homology_thresholds_core_orthologs)
export(plot_pairwise_orthologs)
export(promotor_divergence_estimation)
export(promotor_divergence_of_orthologous_genes)
export(read.cds)
export(read.dnds.tbl)
export(read.genome)
export(read.proteome)
export(retrieve_core_orthologs)
export(retrieve_longest_isoforms)
export(retrieve_longest_isoforms_all)
export(select_orthologs)
export(set_blast)
export(set_diamond)
export(substitutionrate)
export(transl)
export(translate_cds_to_protein)
export(translate_cds_to_protein_all)
export(write.proteome)
import(Biostrings)
import(data.table)
import(foreach)
importFrom(Rcpp,sourceCpp)
importFrom(Rdpack,reprompt)
useDynLib(orthologr, .registration = TRUE)