geoOutliers: Detect geographic outliers

In occTest: Characterizing and Filtering Species Occurrence Data

Detect geographic outliers

Description

Detect geographic outliers

Usage

geoOutliers(
  df,
  xf,
  yf,
  .alpha.parameter,
  .distance.parameter = 1000,
  .medianDeviation.parameter = 5,
  .samplingIntensThreshold.parameter = 0.1,
  method = "all",
  .projString,
  do = TRUE,
  verbose = FALSE
)

Arguments

df	data.frame of species occurrences
xf	character. column name in df containing the x coordinates
yf	character. column name in df containing the y coordinates
.alpha.parameter	parameter setting for alphahull
.distance.parameter	numeric. Maximum distance allowed. Default to 1000
.medianDeviation.parameter	numeric. Deviation parameter to . Default to 0.1
method	charcter. Vector of methods to be used. See details. Default 'all'
.projString	proj4string character. Indicate coordinate reference system
do	logical. Should tests be performed? Default TRUE
verbose	logical. Print messages? Default FALSE

Details

Methods implented are 'alphaHull', detecting species outside an alphaHull level (default 2),
'alphaHull'
'distance' corresponds to 'distance' method in CoordinateCleaner::cc_outl(method='distance'). See ?CoordinateCleaner::cc_outl
'median' corresponds to 'mad' method in CoordinateCleaner::cc_outl(method='mad'). See ?CoordinateCleaner::cc_outl
'quantSamplingCorrected' corresponds to 'mad' method in CoordinateCleaner::cc_outl(method='quantile'). See ?CoordinateCleaner::cc_outl
'grubbs' implements Grubbs test to find spatial outliers. See ?findSpatialOutliers for details

Value

data.frame

Author(s)

Josep M Serra-Diaz ([e-mail]), Cory Merow ([e-mail])

See Also

getPointsOutAlphaHull, cc_outl, findSpatialOutliers

occTest documentation built on Nov. 18, 2022, 5:07 p.m.