candidate_for_synth |
Study Metadata |
candidate_for_synth.study_meta |
Study Metadata |
flags |
'ott_id' and 'flags' for taxonomic names matched by 'tnrs_match_names' |
flags.match_names |
'ott_id' and 'flags' for taxonomic names matched by 'tnrs_match_names' |
flags.taxon_info |
Taxon information |
flags.taxon_mrca |
Taxonomic MRCA |
get_publication |
Study Metadata |
get_publication.study_meta |
Study Metadata |
get_study |
Get all the trees associated with a particular study |
get_study_meta |
Study Metadata |
get_study_subtree |
Study Subtree |
get_study_tree |
Study Tree |
get_study_year |
Study Metadata |
get_study_year.study_meta |
Study Metadata |
get_tree_ids |
Study Metadata |
get_tree_ids.study_meta |
Study Metadata |
inspect |
Inspect and Update alternative matches for a name returned by tnrs_match_names |
inspect.match_names |
Inspect and Update alternative matches for a name returned by tnrs_match_names |
is_in_tree |
Check that OTT ids occur in the Synthetic Tree |
is_suppressed |
Methods for Taxonomy |
is_suppressed.taxon_info |
Taxon information |
is_suppressed.taxon_mrca |
Taxonomic MRCA |
list_trees |
List trees ids in objects returned by 'studies_find_studies' and 'studies_find_trees'. |
list_trees.matched_studies |
List trees ids in objects returned by 'studies_find_studies' and 'studies_find_trees'. |
ott_id |
Methods for Taxonomy |
ott_id.match_names |
'ott_id' and 'flags' for taxonomic names matched by 'tnrs_match_names' |
ott_id.taxon_info |
Taxon information |
ott_id.taxon_mrca |
Taxonomic MRCA |
ott_id.tol_mrca |
MRCA of taxa from the synthetic tree |
ott_id.tol_node |
Node info |
ott_id.tol_summary |
Information about the Tree of Life |
rotl |
An Interface to the Open Tree of Life API |
source_list |
List of studies used in the Tree of Life |
source_list.tol_mrca |
MRCA of taxa from the synthetic tree |
source_list.tol_node |
Node info |
source_list.tol_summary |
List of studies used in the Tree of Life |
strip_ott_ids |
Strip OTT ids from tip labels |
studies_find_studies |
Find a Study |
studies_find_trees |
Find Trees |
studies_properties |
Properties of the Studies |
study_external_IDs |
Get external identifiers for data associated with an Open Tree study |
synonyms |
Methods for Taxonomy |
synonyms.match_names |
List the synonyms for a given name |
synonyms.taxon_info |
Taxon information |
taxonomy_about |
Information about the Open Tree Taxonomy |
taxonomy_mrca |
Taxonomic MRCA |
taxonomy_subtree |
Taxonomy subtree |
taxonomy_taxon_info |
Taxon information |
taxon_external_IDs |
Get external identifiers for data associated with an Open Tree taxon |
tax_lineage |
Lineage of a taxon |
tax_lineage.taxon_info |
Lineage of a taxon |
tax_lineage.tol_node |
Node info |
tax_name |
Methods for Taxonomy |
tax_name.taxon_info |
Taxon information |
tax_name.taxon_mrca |
Taxonomic MRCA |
tax_name.tol_mrca |
MRCA of taxa from the synthetic tree |
tax_name.tol_node |
Node info |
tax_name.tol_summary |
Information about the Tree of Life |
tax_rank |
Methods for Taxonomy |
tax_rank.taxon_info |
Taxon information |
tax_rank.taxon_mrca |
Taxonomic MRCA |
tax_rank.tol_mrca |
MRCA of taxa from the synthetic tree |
tax_rank.tol_node |
Node info |
tax_rank.tol_summary |
Information about the Tree of Life |
tax_sources |
Methods for Taxonomy |
tax_sources.taxon_info |
Taxon information |
tax_sources.taxon_mrca |
Taxonomic MRCA |
tax_sources.tol_mrca |
MRCA of taxa from the synthetic tree |
tax_sources.tol_node |
Node info |
tax_sources.tol_summary |
Information about the Tree of Life |
tnrs_contexts |
TNRS contexts |
tnrs_infer_context |
Infer the taxonomic context from a list of names |
tnrs_match_names |
Match names to the Open Tree Taxonomy |
tol_about |
Information about the Tree of Life |
tol_induced_subtree |
Subtree from the Open Tree of Life |
tol_lineage |
Node info |
tol_lineage.tol_node |
Node info |
tol_mrca |
MRCA of taxa from the synthetic tree |
tol_node_info |
Node info |
tol_subtree |
Extract a subtree from the synthetic tree |
unique_name |
Methods for Taxonomy |
unique_name.taxon_info |
Taxon information |
unique_name.taxon_mrca |
Taxonomic MRCA |
unique_name.tol_mrca |
MRCA of taxa from the synthetic tree |
unique_name.tol_node |
Node info |
unique_name.tol_summary |
Information about the Tree of Life |
update.match_names |
Inspect and Update alternative matches for a name returned by tnrs_match_names |