Skip to contents

Set and get taxon authorities

Source: R/classification.R, R/getter_setter_s3_generics.R, R/taxon.R, and 1 more
tax_auth.Rd

Set and get the taxon authorities in objects that have them, such as taxon objects. Note that this sets all the authority information, such as author name, date, and citations. To set or get just one of part of the authorities, use tax_author, tax_date, or tax_cite instead.

Usage

# S3 method for class 'taxa_classification'
tax_auth(x)

# S3 method for class 'taxa_classification'
tax_auth(x) <- value

tax_auth(x)

tax_auth(x) <- value

# S3 method for class 'taxa_taxon'
tax_auth(x)

# S3 method for class 'taxa_taxon'
tax_auth(x) <- value

# S3 method for class 'taxa_taxonomy'
tax_auth(x)

# S3 method for class 'taxa_taxonomy'
tax_auth(x) <- value

Arguments

x

An object with taxon authorities.

value

The taxon IDs to set. Inputs will be coerced into a taxon_id vector.

Examples

x <- taxon(name = c('Homo sapiens', 'Bacillus', 'Ascomycota', 'Ericaceae'),
           rank = c('species', 'genus', 'phylum', 'family'),
           id = taxon_id(c('9606', '1386', '4890', '4345'), db = 'ncbi'),
           auth = c('Linnaeus, 1758', 'Cohn 1872', NA, 'Juss., 1789'))

tax_auth(x)
#> <taxon_authority[4]>
#> [1] Linnaeus 1758 Cohn 1872     NA            Juss. 1789   
tax_auth(x) <- tolower(tax_auth(x))
tax_auth(x)[1] <- 'Billy'