occTest (version 0.1.1)

geoOutliers: 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
)

Value

data.frame

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

Author

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

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

See Also

getPointsOutAlphaHull, cc_outl, findSpatialOutliers