Optimize threshold for clean data extraction.

Usage

optimal_threshold(
  refdata,
  outliers,
  var_col = NULL,
  warn = FALSE,
  verbose = FALSE,
  plotsetting = list(plot = FALSE, group = NULL),
  cutoff = 0.6
)

Arguments

refdata: dataframe. Species data frame from precleaned analysis.
outliers: datacleaner. Datacleaner output with outliers flagged in multidetect function.
var_col: string. A column with species names if dataset for species is a dataframe not a list. See pred_extract for extracting environmental data.
warn: logical. If TRUE, warning on whether absolute outliers obtained at a low threshold is indicated. Default TRUE.
verbose: logical. If true, then messages about the outlier flagging will be displayed.
plotsetting: list. to show plot of loess fitted function with local and global maxima (optimal threshold and clean data). The list had two parameters. 1) plot to indicate the plot and group to provide the plot title.
cutoff: numeric. Ranging from 0.5 to 0.8 indicating the cutoff to initiate the LOESS model to optimize the identification of absolute outliers.

Value

Either a list or dataframe of cleaned records for multiple species.