n_obs: Count observations in [taxmap()]

In metacoder: Tools for Parsing, Manipulating, and Graphing Taxonomic Abundance Data

Count observations in [taxmap()]

Description

Count observations for each taxon in a data set in a [taxmap()] object. This includes observations for the specific taxon and the observations of its subtaxa. "Observations" in this sense are the items (for list/vectors) or rows (for tables) in a dataset. By default, observations in the first data set in the [taxmap()] object is used. For example, if the data set is a table, then a value of 3 for a taxon means that their are 3 rows in that table assigned to that taxon or one of its subtaxa.

obj$n_obs(data)
n_obs(obj, data)

Arguments

obj	([taxmap()])
data	Dataset name, index, or a logical vector that indicates which dataset in 'obj$data' to add columns to.
target	DEPRECIATED. use "data" instead.

Value

'numeric'

See Also

Other taxmap data functions: n_obs_1()

Examples

# Get number of observations for each taxon in first dataset
n_obs(ex_taxmap)

# Get number of observations in a specified data set
n_obs(ex_taxmap, "info")
n_obs(ex_taxmap, "abund")

# Filter taxa using number of observations in the first table
filter_taxa(ex_taxmap, n_obs > 1)

metacoder documentation built on April 4, 2023, 9:08 a.m.