Handling Taxonomic Lists


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Documentation for package ‘taxlist’ version 0.1.9

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taxlist-package taxlist: Handling taxonomic lists.
$ Extract or Replace Parts of taxlist Objects
$-method Extract or Replace Parts of taxlist Objects
accepted_name Manage accepted names, synonyms and basionyms
accepted_name-method Manage accepted names, synonyms and basionyms
accepted_name<- Manage accepted names, synonyms and basionyms
accepted_name<--method Manage accepted names, synonyms and basionyms
add_concept Retrieve or replace slot taxonRelations in taxlist objects
add_concept-method Retrieve or replace slot taxonRelations in taxlist objects
add_level Deprecated functions
add_parent Deprecated functions
add_synonym Handle information on taxon usage names.
add_synonym-method Handle information on taxon usage names.
add_trait Deprecated functions
add_view Management of concept views in taxonomic lists.
add_view-method Management of concept views in taxonomic lists.
as.list Coerce an S4 object to a list.
as.list-method Coerce an S4 object to a list.
backup_object Make and load backups of R objects
basionym Manage accepted names, synonyms and basionyms
basionym-method Manage accepted names, synonyms and basionyms
basionym<- Manage accepted names, synonyms and basionyms
basionym<--method Manage accepted names, synonyms and basionyms
change_concept<- Merge concepts or move names
change_concept<--method Merge concepts or move names
clean Delete orphaned records
clean-method Delete orphaned records
clean_strings Cleaning character strings.
clean_strings-method Cleaning character strings.
count_taxa Count taxa within a taxlist object.
count_taxa-method Count taxa within a taxlist object.
delete_name Handle information on taxon usage names.
delete_name-method Handle information on taxon usage names.
Deprecated-functions Deprecated functions
df2taxlist Convert data frames into taxlist objects
df2taxlist-method Convert data frames into taxlist objects
dissect_name Dissect Scientific Names into their Elements
Easplist List of vascular plants from East Africa
Easplist-data List of vascular plants from East Africa
Extract Extract or Replace Parts of taxlist Objects
get_children Retrieve children or parents of taxon concepts
get_children-method Retrieve children or parents of taxon concepts
get_parents Retrieve children or parents of taxon concepts
get_parents-method Retrieve children or parents of taxon concepts
insert_rows Data manipulation.
levels Set and retrieves hierarchical levels
levels-method Set and retrieves hierarchical levels
levels<- Set and retrieves hierarchical levels
levels<--method Set and retrieves hierarchical levels
load_last Make and load backups of R objects
match_names Search matchings between character and taxlist objects
match_names-method Search matchings between character and taxlist objects
merge_taxa Merge concepts or move names
merge_taxa-method Merge concepts or move names
print_name Format usage names for publications
print_name-method Format usage names for publications
replace_idx Data manipulation.
replace_na Data manipulation.
replace_view Deprecated functions
replace_x Data manipulation.
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 overviews for taxlist Objects and their content
summary-method Print overviews for taxlist Objects and their content
synonyms Manage accepted names, synonyms and basionyms
synonyms-method Manage accepted names, synonyms and basionyms
tax2traits Set taxonomic information as taxon traits
tax2traits-method Set taxonomic information as taxon traits
taxlist-class An S4 class to represent taxonomic lists.
taxlist2taxmap Conversion among taxlist and taxmap objects
taxlist2taxmap-method Conversion among taxlist and taxmap objects
taxmap2taxlist Conversion among taxlist and taxmap objects
taxon_names Handle information on taxon usage names.
taxon_names-method Handle information on taxon usage names.
taxon_names<- Handle information on taxon usage names.
taxon_names<--method Handle information on taxon usage names.
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 Manipulation of taxon traits in taxlist objects.
taxon_traits-method Manipulation of taxon traits in taxlist objects.
taxon_traits<- Manipulation of taxon traits in taxlist objects.
taxon_traits<--method Manipulation of taxon traits 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 Taxonomic Name Resolution Service
tnrs-method Taxonomic Name Resolution Service
tv2taxlist Import species lists from Turboveg databases
update_concept Retrieve or replace slot taxonRelations in taxlist objects
update_concept-method Retrieve or replace slot taxonRelations in taxlist objects
update_name Handle information on taxon usage names.
update_name-method Handle information on taxon usage names.
update_trait Manipulation of taxon traits in taxlist objects.
update_trait-method Manipulation of taxon traits in taxlist objects.
[ Extract or Replace Parts of taxlist Objects
[-method Extract or Replace Parts of taxlist Objects