accession2gi            Maps a genbank accession to a nuclotide
                        database gi.
bryophytes_trnL         PrimerTree results for the bryophyte trnL
                        primers
clustalo                Multiple sequence alignment with clustal omega
get_sequence            Retrieves a fasta sequence from NCBI nucleotide
                        database.
get_sequences           Retrieves fasta sequences from NCBI nucleotide
                        database.
get_taxonomy            Retrieve the taxonomy information from NCBI for
                        a set of nucleotide gis.
gi2taxid                Maps a nucleotide database gi to a taxonomy
                        database taxId
identify.primerTree_plot
                        identify the point closest to the mouse click
                        only works on single ranks
layout_tree_ape         layout a tree using ape, return an object to be
                        plotted by 'plot_tree'
mammals_16S             PrimerTree results for the mammalian 16S
                        primers
plot.primerTree         plot function for a primerTree object, calls
                        plot_tree_ranks
plot_tree               plots a tree, optionally with colored and
                        labeled points by taxonomic rank
plot_tree_ranks         plots a tree along with a series of taxonomic
                        ranks
primerTree              'primerTree' Visually Assessing the Specificity
                        and Informativeness of Primer Pairs
primer_search           Query a pair of primers using ncbi's
                        Primer-BLAST, if primers contain iupac
search_primer_pair      Automatic primer searching Search a given
                        primer pair, retrieving the alignment results,
                        their product sequences, the taxonomic
                        information for the sequences, a multiple
                        alignment of the products
summary.primerTree      Summarize a primerTree result, printing
                        quantiles of sequence length and pairwise
                        differences.
tree_from_alignment     Construct a neighbor joining tree from a dna
                        alignment
