| diat_ips {diathor} | R Documentation |
Calculates the Specific Polluosensitivity Index (IPS) index
Description
The input for all of these functions is the resulting dataframe (resultLoad) obtained from the diat_loadData() function A CSV or dataframe cannot be used directly with these functions, they have to be loaded first with the diat_loadData() function so the acronyms and species' names are recognized References for the index:
Coste, M. (1982). Étude des méthodes biologiques d’appréciation quantitative de la qualité des eaux. Rapport Cemagref QE Lyon-AF Bassin Rhône Méditerranée Corse.
Sample data in the examples is taken from:
Nicolosi Gelis, María Mercedes; Cochero, Joaquín; Donadelli, Jorge; Gómez, Nora. 2020. "Exploring the use of nuclear alterations, motility and ecological guilds in epipelic diatoms as biomonitoring tools for water quality improvement in urban impacted lowland streams". Ecological Indicators, 110, 105951. https://doi:10.1016/j.ecolind.2019.105951
Usage
diat_ips(resultLoad, maxDistTaxa = 2)
Arguments
resultLoad |
The resulting list obtained from the diat_loadData() function |
maxDistTaxa |
Integer. Number of characters that can differ in the species' names when compared to the internal database's name in the heuristic search. Default = 2 |
Examples
# Example using sample data included in the package (sampleData):
data("diat_sampleData")
# First, the diat_loadData() function has to be called to read the data
# The data will be stored into a list (loadedData)
# And an output folder will be selected through a dialog box if resultsPath is empty
# In the example, a temporary directory will be used in resultsPath
df <- diat_loadData(diat_sampleData, resultsPath = tempdir())
ipsResults <- diat_ips(df)