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Extract or Replace Parts of taxlist Objects

Source: R/Extract.R
Extract.Rd

Quick access to slots taxonTraits and taxonRelations within taxlist objects.

Usage

# S4 method for taxlist
[(x, i, j, drop = FALSE)

# S4 method for taxlist
$(x, name)

Arguments

x

Object of class taxlist.

i

Integer or logical vector used as index for access to taxon concepts, referring to the rows in slot 'taxonRelations'. These indices can be used to produce a object with a subset of taxon concepts. It is not recommended to use character values for this index.

j

Integer, logical or character vector used as index for access to variables in slot 'taxonTraits'. These indices can be used to reduce the number of variables in the mentioned slot.

drop

A logical value passed to Extract.

name

A symbol or character value for the method $, corresponding to a variable either at slot 'taxonTraits' or slot 'taxonRelations'.

Value

The method $ retrieves a vector, while [ retrieves a subset of the input taxlist object.

See also

taxlist subset

Author

Miguel Alvarez kamapu78@gmail.com.

Examples

## Statistics on life forms
summary(as.factor(Easplist$life_form))
#>   acropleustophyte        chamaephyte     climbing_plant facultative_annual 
#>                  8                 25                 25                 20 
#>    obligate_annual       phanerophyte   pleustohelophyte         reed_plant 
#>                114                 26                  8                 14 
#>      reptant_plant      tussock_plant               NA's 
#>                 19                 52               3576 

## First concepts in this list
summary(Easplist[1:5, ], "all")
#> ------------------------------ 
#> concept ID: 1 
#> view ID: 1 
#> level: species 
#> parent: none 
#> 
#> # accepted name: 
#> 1 Abelmoschus esculentus (L.) Moench 
#> 
#> # synonyms (1): 
#> 52313 Hibiscus esculentus L. 
#> ------------------------------ 
#> concept ID: 2 
#> view ID: 1 
#> level: species 
#> parent: none 
#> 
#> # accepted name: 
#> 2 Abutilon indicum (L.) 
#> ------------------------------ 
#> concept ID: 3 
#> view ID: 1 
#> level: species 
#> parent: none 
#> 
#> # accepted name: 
#> 3 Abutilon mauritianum (Jacq.) Medik. 
#> 
#> # synonyms (1): 
#> 50361 Pavonia patens (Andrews) Chiov. 
#> ------------------------------ 
#> concept ID: 4 
#> view ID: 1 
#> level: species 
#> parent: none 
#> 
#> # accepted name: 
#> 4 Acacia drepanolobium Harms ex Y. Sjöstedt 
#> ------------------------------ 
#> concept ID: 5 
#> view ID: 1 
#> level: species 
#> parent: none 
#> 
#> # accepted name: 
#> 5 Acacia elatior Brenan 
#> ------------------------------