Handling Taxonomic Lists

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Documentation for package ‘taxlist’ version 0.1.3

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taxlist-package Handling taxonomic lists.
$-method Extract or replace parts of a 'taxlist' object.
$<- Extract or replace parts of a 'taxlist' object.
$<--method Extract or replace parts of a 'taxlist' object.
accepted_name Retrieve or set accepted name for taxon concepts.
accepted_name-method Retrieve or set accepted name for taxon concepts.
accepted_name<- Retrieve or set accepted name for taxon concepts.
accepted_name<--method Retrieve or set accepted name for taxon concepts.
add_concept Insert a new taxon concept in a 'taxlist' object.
add_concept-method Insert a new taxon concept in a 'taxlist' object.
add_level Add or modify level entries in single concepts.
add_level-method Add or modify level entries in single concepts.
add_level<- Add or modify level entries in single concepts.
add_level<--method Add or modify level entries in single concepts.
add_parent Add or modify parent entries in taxon concepts.
add_parent-method Add or modify parent entries in taxon concepts.
add_parent<- Add or modify parent entries in taxon concepts.
add_parent<--method Add or modify parent entries in taxon concepts.
add_synonym Insert synonyms in a 'taxlist' object.
add_synonym-method Insert synonyms in a 'taxlist' object.
add_trait Add trait variables to a taxonomic list.
add_trait-method Add trait variables to a taxonomic list.
add_view Add a new reference in a taxonomic list.
add_view-method Add a new reference in a taxonomic list.
as.list Coerce an S4 object to a list.
as.list-method Coerce an S4 object to a list.
backup_object Backups R objects.
change_cocept Move a name to a different concept.
change_concept<- Move a name to a different concept.
change_concept<--method Move a name to a different concept.
clean Clean orphaned records.
clean-method Clean orphaned records.
df2taxlist Convert a Data Frame into a taxlist Object
df2taxlist-method Convert a Data Frame into a taxlist Object
Easplist Species list for East Africa.
Easplist-data Species list for East Africa.
Extract Extract or replace parts of a 'taxlist' object.
get_children Retrieve children or parents of determined concepts.
get_children-method Retrieve children or parents of determined concepts.
get_parents Retrieve children or parents of determined concepts.
get_parents-method Retrieve children or parents of determined concepts.
levels Set hierarchical levels in 'taxlist' objects
levels-method Set hierarchical levels in 'taxlist' objects
levels<- Set hierarchical levels in 'taxlist' objects
levels<--method Set hierarchical levels in 'taxlist' objects
merge_taxa Merge concepts.
merge_taxa-method Merge concepts.
S4_to_list Coerce an S4 object to a list.
subset Subset method for 'taxlist' objects.
subset-method Subset method for 'taxlist' objects.
summary Print overview for 'taxlist' objects.
summary-method Print overview for 'taxlist' objects.
tax2traits Add taxonomic information to slot 'taxonTraits'.
tax2traits-method Add taxonomic information to slot 'taxonTraits'.
taxlist Class taxlist.
taxlist-class Class taxlist.
taxon_names Retrieve or replace slot 'taxonNames' in 'taxlist' objects.
taxon_names-method Retrieve or replace slot 'taxonNames' in 'taxlist' objects.
taxon_names<- Retrieve or replace slot 'taxonNames' in 'taxlist' objects.
taxon_names<--method Retrieve or replace slot 'taxonNames' in 'taxlist' objects.
taxon_relations Retrieve or replace Slot 'taxonRelations' in 'taxlist' objects
taxon_relations-method Retrieve or replace Slot 'taxonRelations' in 'taxlist' objects
taxon_relations<- Retrieve or replace Slot 'taxonRelations' in 'taxlist' objects
taxon_relations<--method Retrieve or replace Slot 'taxonRelations' in 'taxlist' objects
taxon_traits Retrieve or replace slot 'taxonTraits' in "taxlist" objects.
taxon_traits-method Retrieve or replace slot 'taxonTraits' in "taxlist" objects.
taxon_traits<- Retrieve or replace slot 'taxonTraits' in "taxlist" objects.
taxon_traits<--method Retrieve or replace slot 'taxonTraits' in "taxlist" objects.
taxon_views Management of concept views in taxonomic lists.
taxon_views-method Management of concept views in taxonomic lists.
taxon_views<- Management of concept views in taxonomic lists.
taxon_views<--method Management of concept views in taxonomic lists.
tnrs Phylotastic Taxonomic Name Resolution Service.
tnrs-method Phylotastic Taxonomic Name Resolution Service.
tv2taxlist Import species lists from Turboveg databases.
[ Extract or replace parts of a 'taxlist' object.
[-method Extract or replace parts of a 'taxlist' object.
[<- Extract or replace parts of a 'taxlist' object.
[<--method Extract or replace parts of a 'taxlist' object.