allocateCVI             Allocate sequences for cross validation by
                        identity.
classify                Tree-based sequence classification.
conversion              Convert sequences between binary and character
                        string formats.
demultiplex             Demultiplex merged FASTQ
disambiguate            Convert oligonucleotide sequences into regular
                        expressions.
encoding                Encode and decode profile HMMs in raw byte
                        format.
expand                  Expand an existing classification tree.
get_lineage             Get full lineage details from a taxonomic ID
                        number.
get_taxID               Get taxon ID from taxonomy database.
hash                    Convert sequences to MD5 hashes.
insect                  Informatic sequence classification trees.
join                    Concatenate DNAbin objects while preserving
                        attributes.
learn                   Informatic sequence classification tree
                        learning.
manipulate              Further bit-level manipulation of DNA and amino
                        acid sequences.
prune_taxonomy          Prune taxonomy database.
purge                   Identify and remove erroneous reference
                        sequences.
qfilter                 Quality filtering for amplicon sequences.
rc                      Reverse complement DNA in character string
                        format.
read                    Read FASTA and FASTQ files.
replicate               Dereplicate and rereplicate sequence datasets.
samoa                   Table of marine COI amplicon sequence variants
                        from American Samoa
searchGB                Query the NCBI GenBank database.
shave                   Shave ends from DNA and amino acid sequences
stitch                  Paired-end read stitching.
taxonomy                Download taxonomy database.
trim                    Trim primer and/or index sequences.
virtualFISH             Virtual _in situ_ hybridization.
virtualPCR              Virtual PCR.
whale_taxonomy          Cetacean section of NCBI taxonomy database.
whales                  Cetacean 16S rDNA sequences.
write                   Write sequences to text in FASTA or FASTQ
                        format.
