/usr/lib/R/site-library/rotl/INDEX is in r-cran-rotl 3.0.3-2.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 | get_study Get all the trees associated with a particular
study
get_study_subtree Study Subtree
get_study_tree Study Tree
get_tree_ids Study Metadata
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
list_trees List trees ids in objects returned by
'studies_find_studies' and
'studies_find_trees'.
ott_id.match_names 'ott_id' and 'flags' for taxonomic names
matched by 'tnrs_match_names'
rotl An Interface to the Open Tree of Life API
source_list 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.match_names List the synonyms for a given name
tax_lineage Lineage of a taxon
tax_rank Methods for Taxonomy
taxon_external_IDs Get external identifiers for data associated
with an Open Tree taxon
taxonomy_about Information about the Open Tree Taxonomy
taxonomy_mrca Taxonomic MRCA
taxonomy_subtree Taxonomy subtree
taxonomy_taxon_info Taxon information
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_mrca MRCA of taxa from the synthetic tree
tol_subtree Extract a subtree from the synthetic tree
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