tol_attach_fasta        Attach parsed FASTA data to a download plan
tol_base_url            Kew Tree of Life base URL
tol_build_gene_tree     Build an illustrative tree from one shared gene
tol_common_genes        Choose a gene shared by multiple downloaded
                        FASTA files
tol_data_dir            Local data directory for downloaded files
tol_download            Download files from a Kew Tree of Life release
tol_download_bundle     Download a predefined Kew Tree of Life bundle
tol_download_directory
                        Download and validate one directory from a Kew
                        Tree of Life release
tol_download_fasta      Download FASTA files for selected species
                        records
tol_download_release    Download and validate a complete Kew Tree of
                        Life release
tol_export_fasta        Export downloaded FASTA files and a manifest
tol_fasta_long          Convert attached FASTA data to a tidy long
                        table
tol_fasta_summary       Summarise FASTA content by species record
tol_index               List files and directories in a Kew Tree of
                        Life remote index
tol_known_bundle        Known download bundles
tol_known_bundles       Known download bundles
tol_manifest            Read a downloaded Kew Tree of Life manifest
tol_match_species       Match requested species names against the Kew
                        Tree of Life index
tol_plot_fasta_summary
                        Plot FASTA summary with ggplot2
tol_plot_gene_recovery
                        Plot recovered gene counts with ggplot2
tol_plot_tree           Plot an hclust tree with ggplot2
tol_read_fasta          Read a FASTA file
tol_release_url         Build a URL for a Kew Tree of Life release
tol_resolve_fasta       Resolve FASTA download targets for selected
                        species records
tol_save_fasta          Save downloaded FASTA files to a permanent
                        directory
tol_search_species      Search Kew Tree of Life species records
tol_set_base_url        Set the Kew Tree of Life base URL for the
                        current R session
tol_species             Kew Tree of Life species index
tol_species_index       Read the Kew Tree of Life species index
