clover/NAMESPACE at devel · rnabioco/clover · GitHub

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# Generated by roxygen2: do not edit by hand

export(aa_colors)
export(abundance_count_matrix)
export(aggregate_or_isodecoder)
export(build_coldata)
export(build_or_network)
export(calc_fold_change)
export(calculate_rewiring_scores)
export(charging_colors)
export(charging_count_matrix)
export(clean_odds_ratios)
export(clover_example)
export(cohens_d)
export(compute_bcerror_delta)
export(compute_charging_diffs)
export(compute_odds_ratios)
export(compute_ror)
export(compute_ror_isodecoder)
export(create_clover)
export(default_mod_palette)
export(dna_to_rna_anticodon)
export(fetch_modomics_mods)
export(filter_linkages)
export(identity_elements)
export(identity_organisms)
export(list_pipeline_files)
export(map_identity_to_trna)
export(modomics_mods)
export(modomics_organisms)
export(order_sprinzl_positions)
export(perform_pcoa)
export(plot_abundance_charging)
export(plot_arc_diagram)
export(plot_bcerror_profile)
export(plot_charging_diffs)
export(plot_charging_ratios)
export(plot_chord_or)
export(plot_chord_ror)
export(plot_identity_panel)
export(plot_identity_structure)
export(plot_mod_heatmap)
export(plot_mod_landscape)
export(plot_pcoa_rewiring)
export(plot_tRNA_structure)
export(plot_volcano)
export(prep_mod_heatmap)
export(prepare_rewiring_matrix)
export(propagate_error_diff)
export(propagate_error_ratio)
export(read_bcerror)
export(read_charging)
export(read_charging_multi)
export(read_counts)
export(read_fasta)
export(read_mod_annotations)
export(read_odds_ratios)
export(read_odds_ratios_multi)
export(read_pipeline_config)
export(read_pipeline_results)
export(read_sprinzl_coords)
export(run_deseq)
export(shorten_trna_names)
export(structure_html)
export(structure_organisms)
export(structure_to_png)
export(structure_trnas)
export(tabulate_deseq)
export(tidy_deseq_results)
export(trna_regions)
import(S4Vectors)
import(SummarizedExperiment)
import(ggplot2)
import(methods)
importClassesFrom(SummarizedExperiment,SummarizedExperiment)
importFrom(cli,cli_abort)
importFrom(cli,cli_inform)
importFrom(cli,cli_warn)
importFrom(rlang,":=")
importFrom(rlang,.data)
importFrom(rlang,check_installed)
importFrom(yaml,read_yaml)
useDynLib(clover, .registration = TRUE)