Run Data Quality Checks Based on Data Type

Dispatch function that triggers additional functions based on data type.

run_qc_checks(data, data_type, ...)

Arguments

data

Data frame containing the data to check. Requires specific column names. Water quality: datetime, parameter, value, site_id; Fish observation: date, site_id, species, count (optional), fork_length (optional), weight (optional), observer (optional); Carcass survey: date, site_id, survey_period, carcass_id, condition, sex, fork_length, marked; RST catch: date, trap_id, species, life_stage, count, hours_fished (optional); Invertebrate: date, site_id, sample_id, taxon, count; Habitat: date, site_id, transect_id, depth, velocity, substrate (optional); Chemistry: analyte, result, units, sample_id (optional), date (optional), site_id (optional), mdl (optional), pql (optional), lab_qc_type (optional), detected (optional - TRUE/FALSE for detection status)

data_type

Character string specifying data type: "water_quality", "fish_observation", "carcass_survey", "rst_catch", "invertebrate", "habitat", "chemistry"

...

Additional arguments passed to specific QC functions

Value

List containing QC results, flags, and summary statistics and plots for water quality data.

Examples

if (FALSE) { # \dontrun{
fish_data <- read_csv("data/clean/microhabitat_observations.csv")
fish_data_format <- fish_data |>
    select(date, species, micro_hab_data_tbl_id, count) |>
    rename(site_id = micro_hab_data_tbl_id) |>
    filter(count > 0)
qc <- run_qc_checks(fish_data_format, "fish_observation")
qc$flags |> View()
} # }