| accessionToTaxa | Convert accessions to taxa |
| condenseTaxa | Condense multiple taxonomic assignments to their most recent common branch |
| getAccession2taxid | Download accession2taxid files from NCBI |
| getAccessions | Find all accessions for a taxa |
| getId | Find a given taxa by name |
| getId2 | Find a given taxa by name |
| getNamesAndNodes | Download names and nodes files from NCBI |
| getRawTaxonomy | Get all taxonomy for a taxa |
| getTaxonomy | Get taxonomic ranks for a taxa |
| getTaxonomy2 | Get taxonomic ranks for a taxa |
| lastNotNa | Return last not NA value |
| makeNewick | Create a Newick tree from taxonomy |
| prepareDatabase | Download data from NCBI and set up SQLite database |
| read.accession2taxid | Read NCBI accession2taxid files |
| read.names | Read NCBI names file |
| read.names.sql | Read NCBI names file |
| read.nodes | Read NCBI nodes file |
| read.nodes.sql | Read NCBI nodes file |
| streamingRead | Process a large file piecewise |
| taxonomizrSwitch | Switch from data.table to SQLite |
| trimTaxa | Trim columns from taxa file |