endpoint.RdR6 class objects of class chent represent chemical entities and can hold a list of information loaded from a chemical yaml file in their chyaml field. Such information is extracted and optionally aggregated by this function.
endpoint(
chent,
medium = "soil",
type = c("degradation", "sorption"),
lab_field = c(NA, "laboratory", "field"),
redox = c(NA, "aerobic", "anaerobic"),
value = c("DT50ref", "Kfoc", "N"),
aggregator = geomean,
raw = FALSE,
signif = 3
)
soil_DT50(
chent,
aggregator = geomean,
signif = 3,
lab_field = "laboratory",
value = "DT50ref",
redox = "aerobic",
raw = FALSE
)
soil_Kfoc(chent, aggregator = geomean, signif = 3, value = "Kfoc", raw = FALSE)
soil_N(chent, aggregator = mean, signif = 3, raw = FALSE)
soil_sorption(
chent,
values = c("Kfoc", "N"),
aggregators = c(Kfoc = geomean, Koc = geomean, N = mean),
signif = c(Kfoc = 3, N = 3),
raw = FALSE
)The chent object to get the information from
The medium for which information is sought
The information type
If not NA, do we want laboratory or field endpoints
If not NA, are we looking for aerobic or anaerobic data
The name of the value we want. The list given in the usage section is not exclusive
The aggregator function. Can be mean,
geomean, or identity, for example.
Should the number(s) be returned as stored in the chent object (could be a character value) to retain original information about precision?
How many significant digits do we want
The values to be returned
A named vector of aggregator functions to be used
The result from applying the aggregator function to the values converted to a numeric vector, rounded to the given number of significant digits, or, if raw = TRUE, the values as a character value, retaining any implicit information on precision that may be present.
The functions soil_* are functions to extract soil specific endpoints.
For the Freundlich exponent, the capital letter N is used in order to
facilitate dealing with such data in R. In pesticide fate modelling, this
exponent is often called 1/n.