Man pages for MoultDB/moultdbtools
Create Custom Taxonomies Based on the NCBI Taxonomy and GBIF Backbone Taxonomy
| annotate | Annotate a custom taxonomy |
| dedupe | Remove duplicate scientific names in a taxonomy |
| download_gbif | Download the GBIF backbone taxonomy |
| download_ncbi | Download the NCBI taxonomy |
| fuzzy_search | Match misspelled or partial scientific names |
| get_inconsistencies | Detect candidate inconsistencies and ambiguity between NCBI... |
| get_lineages | Get entries that have lineage information for both the GBIF... |
| get_status | Filter a custom taxonomy by GBIF taxonomic status/synonym |
| get_taxa | A helper function to filter on GBIF and NCBI taxa names |
| get_validity | Validate entries of a merged taxonomy |
| load_population | Load previously merged GBIF and NCBI taxonomies |
| load_sample | Load an example of previously merged GBIF and NCBI taxonomies |
| load_taxonomies | Load and merge GBIF and NCBI taxonomic data |
| plot_mdb | Generic for plot_mdb methods |
| prepare_comparable_rank_dist | Get comparable NCBI and GBIF taxonomic ranks |
| prepare_rank_dist | Get all NCBI and GBIF taxonomic ranks |
| term_conversion | Convert GBIF terms to NCBI terms |
