API for rotl
Interface to the 'Open Tree of Life' API
| Global functions | |
|---|---|
| .collection_find_collections | Source code |
| .collection_properties | Source code |
| .get_collection | Source code |
| .get_study | Source code |
| .get_study_meta | Source code |
| .get_study_subtree | Source code |
| .get_study_tree | Source code |
| .source_list | Source code |
| .studies_find_studies | Source code |
| .studies_find_trees | Source code |
| .studies_properties | Source code |
| .taxonomy_about | Source code |
| .taxonomy_mrca | Source code |
| .taxonomy_subtree | Source code |
| .taxonomy_taxon_info | Source code |
| .tnrs_contexts | Source code |
| .tnrs_infer_context | Source code |
| .tnrs_match_names | Source code |
| .tol_about | Source code |
| .tol_induced_subtree | Source code |
| .tol_mrca | Source code |
| .tol_node_info | Source code |
| .tol_subtree | Source code |
| `[.otl_ott_id` | Source code |
| add_otl_class | Source code |
| build_empty_row | Source code |
| build_lineage | Source code |
| build_summary_match | Source code |
| candidate_for_synth | Man page Source code |
| candidate_for_synth.study_meta | Man page Source code |
| check_args_match_names | Source code |
| check_factory | Source code |
| check_is_flag | Source code |
| check_is_string | Source code |
| check_label_format | Source code |
| check_lineage | Source code |
| check_node_ids | Source code |
| check_numeric | Source code |
| check_ott_ids | Source code |
| check_tnrs | Source code |
| check_valid_node_id | Source code |
| clean_tnrs_summary | Source code |
| convert_to_logical | Source code |
| dedup_lbl | Source code |
| deduplicate_labels | Source code |
| extract_title | Source code |
| flags | Man page Source code |
| flags.match_names | Man page |
| flags.taxon_info | Man page |
| flags.taxon_mrca | Man page |
| get_lineage | Source code |
| get_list_element | Source code |
| get_pmid | Source code |
| get_publication | Man page Source code |
| get_publication.study_meta | Man page Source code |
| get_study | Man page Source code |
| get_study_meta | Man page Source code |
| get_study_otu | Source code |
| get_study_otumap | Source code |
| get_study_otus | Source code |
| get_study_subtree | Man page Source code |
| get_study_tree | Man page Source code |
| get_study_year | Man page Source code |
| get_study_year.study_meta | Man page Source code |
| get_tree_ids | Man page Source code |
| get_tree_ids.study_meta | Man page Source code |
| highest_match_score | Source code |
| inspect | Man page Source code |
| inspect.match_names | Man page Source code |
| is_in_tree | Man page Source code |
| is_in_tree.default | Source code |
| is_in_tree.otl_ott_id | Source code |
| is_otl_online | Source code |
| is_suppressed | Man page Source code |
| is_suppressed.taxon_info | Man page |
| is_suppressed.taxon_mrca | Man page |
| is_taxon | Source code |
| limit_trees | Source code |
| list_trees | Man page Source code |
| list_trees.matched_studies | Man page Source code |
| lowest_ott_id | Source code |
| match_names_method_factory | Source code |
| match_names_taxon_method_factory | Source code |
| match_row_number | Source code |
| nexml_from_otl | Source code |
| otl_GET | Source code |
| otl_POST | Source code |
| otl_base_url | Source code |
| otl_check | Source code |
| otl_check_error | Source code |
| otl_formats | Source code |
| otl_ottid_from_label | Source code |
| otl_parse | Source code |
| otl_url | Source code |
| otl_version | Source code |
| ott_id | Man page Source code |
| ott_id.match_names | Man page |
| ott_id.taxon_info | Man page |
| ott_id.taxon_mrca | Man page |
| ott_id.tol_mrca | Man page |
| ott_id.tol_node | Man page |
| ott_id.tol_summary | Man page |
| parse_newick | Source code |
| phylo_from_otl | Source code |
| print.study_external_data | Source code |
| print.study_ids | Source code |
| print.study_meta | Source code |
| print.tnrs_contexts | Source code |
| print.tol_mrca | Source code |
| print.tol_node | Source code |
| print.tol_summary | Source code |
| rotl | Man page |
| rotl_is_flag | Source code |
| rotl_is_string | Source code |
| source_list | Man page Source code |
| source_list.tol_mrca | Man page |
| source_list.tol_node | Man page |
| source_list.tol_summary | Man page |
| strip_ott_ids | Man page Source code |
| studies_find_studies | Man page Source code |
| studies_find_trees | Man page Source code |
| studies_properties | Man page Source code |
| study_external_IDs | Man page Source code |
| summarize_meta | Source code |
| summary_row_factory | Source code |
| synonyms | Man page Source code |
| synonyms.match_names | Man page |
| synonyms.taxon_info | Man page |
| tax_access_factory | Source code |
| tax_lineage | Man page Source code |
| tax_lineage.taxon_info | Man page Source code |
| tax_lineage.tol_node | Man page Source code |
| tax_name | Man page Source code |
| tax_name.taxon_info | Man page |
| tax_name.taxon_mrca | Man page |
| tax_name.tol_mrca | Man page |
| tax_name.tol_node | Man page |
| tax_name.tol_summary | Man page |
| tax_rank | Man page Source code |
| tax_rank.taxon_info | Man page |
| tax_rank.taxon_mrca | Man page |
| tax_rank.tol_mrca | Man page |
| tax_rank.tol_node | Man page |
| tax_rank.tol_summary | Man page |
| tax_sources | Man page Source code |
| tax_sources.taxon_info | Man page |
| tax_sources.taxon_mrca | Man page |
| tax_sources.tol_mrca | Man page |
| tax_sources.tol_node | Man page |
| tax_sources.tol_summary | Man page |
| taxon_external_IDs | Man page Source code |
| taxon_info_method_factory | Source code |
| taxon_mrca_method_factory | Source code |
| taxonomy_about | Man page Source code |
| taxonomy_mrca | Man page Source code |
| taxonomy_subtree | Man page Source code |
| taxonomy_taxon_info | Man page Source code |
| tnrs_contexts | Man page Source code |
| tnrs_infer_context | Man page Source code |
| tnrs_match_names | Man page Source code |
| tol_about | Man page Source code |
| tol_about_method_factory | Source code |
| tol_induced_subtree | Man page Source code |
| tol_lineage | Man page Source code |
| tol_lineage.tol_node | Man page Source code |
| tol_mrca | Man page Source code |
| tol_mrca_method_factory | Source code |
| tol_node_info | Man page Source code |
| tol_node_method_factory | Source code |
| tol_subtree | Man page Source code |
| tree_to_labels | Source code |
| unique_name | Man page Source code |
| unique_name.taxon_info | Man page |
| unique_name.taxon_mrca | Man page |
| unique_name.tol_mrca | Man page |
| unique_name.tol_node | Man page |
| unique_name.tol_summary | Man page |
| update.match_names | Man page Source code |
