easynem (version 1.0.3)

trans_name: Reorganize the easynem's tab by taxonomic name

Description

The trans_name() is used to re-summarize the nematode abundance table by nematode taxonomy table.

Usage

trans_name(data, taxonomy)

Value

A reclassified and aggregated easynem-class.

Arguments

data

An easynem-class data.

taxonomy

Nematode taxonomic name or other nematode attributes.

Feedings

Since the nematode taxonomy table is automatically associated with the nematode database (nem_database) including feeding and cp_value when reading data through read_nem or read_nem2, feeding can also be passed as a parameter to trans_name(). The corresponding relationship between the feeding value and the actual nematode feeding habits is as follows:

• feeding = 1, plant feeding

• feeding = 2, fungal hyphal feeding

• feeding = 3, bacterial feeding

• feeding = 4, substrate ingestion

• feeding = 5, predation (including specialist predators of nematodes)

• feeding = 6, eucaryote feeding

• feeding = 7, dispersal stages or animal parasites

• feeding = 8, omnivory (including general predators of nematodes)

Details

To facilitate code interpretation, it is recommended to use the pipe symbol |> to connect functions:

nem_trans <- nem |> trans_name(Family)

See Also

Other functions in this package for filtering and transforming data sets: filter_name, trans_formula, trans_formula_v, filter_num, trans_norm, trans_rare, trans_combine

Examples

nem <- read_nem2(tab = nemtab, tax = nemtax, meta = nemmeta)
nem_trans <- nem |> trans_name(Family)
show(nem_trans)
nem_trans <- nem |> trans_name(feeding)
show(nem_trans)