calc_metric: Calculate Macro-invertebrate Metrics

In aquaMetrics/macroinvertebratesMetrics: Macroinvertebrate Biotic indices

Calculate Macro-invertebrate Metrics

Description

Calculate Macro-invertebrate Metrics

Usage

calc_metric(
  data,
  metrics = c("awic", "epsi", "psi", "riverfly", "spear", "whpt"),
  taxa_list = "TL2",
  taxon_table = macroinvertebrateMetrics::macroinvertebrateTaxa,
  names = macroinvertebrateMetrics::column_attributes$name,
  questions = c("Taxon abundance", "Taxon Abundance", "Live abundance"),
  metric_cols = macroinvertebrateMetrics::metric_cols,
  ...
)

Arguments

data	dataframe like 'demo_data'
metrics	One One or more of "awic", "epsi", "riverfly", "spear", "whpt".
taxa_list	Taxa list either "TL2", "TL3" or "TL5.
taxon_table	Optional Dataframe with WHPT scores and taxa. Default is NULL and will use built in WHPT scores. But you could supply custom dataframe if required for experimenation/development purposes.
questions	Optional, user provided 'question' default is 'Taxon abundance', which filters only abundance values.
metric_cols	Columns used from taxon table to calculate metrics plus to taxon name column to join to input data (if using custom taxon table)
...	Pass in specific paramters for each metric.

Value

dataframe

Examples

output <- calc_metric(demo_data)

aquaMetrics/macroinvertebratesMetrics documentation built on Feb. 3, 2024, 2:35 a.m.