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occTest

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Version

Install

install.packages('occTest')

Monthly Downloads

8

Version

0.1.1

License

MIT + file LICENSE

Maintainer

Josep M Serra-Diaz

Last Published

November 18th, 2022

Functions in occTest (0.1.1)

.ah2sp

Convert Alpha Hull object into a shapefile
.cd_ddmm_occTest

Flag records with regular pattern interval
.check.geospatial.data

Checks on the projection of the spatial data
.addmainfields2

Add main fields
.find_and_transform_dates

Identify and harmonize data formats
.getSRTM

Download SRTM elevation raster
.cc_outl_occTest

Identify geographic outliers based on methods from CoordinateCleaner package
centroidDetection

Centroid detection function
ctryToIso3

Convert country names to ISO3 codes
duplicatesexcludeAnalysis

Duplicated records
.get_os

Identify type of Operative system
envOutliers

Detect environmental outliers
centroid_assessment

Centroid assessment using BIEN methods
filterMissing

Check for missing coordinates
.cc_round_occTest

Flag records with regular pattern interval
.cc_urb_occTest

Flag values in urban areas (based on coordinate cleaner but modified for occTest to deliver it quitely)
findEnvOutliers

Find outlying occurrence data in environmental space
landSeaFilter

Filter occurrence by habitat (terrestrial/non-Terrestrial)
institutionLocality

Detect biodiversity institutions
landUseSelect

Selection of records within a specified land use
lazylogic

a lazy logic omitting NAs
presPercentile

Identify percentile of presences
.checkfields

Checking main fields
.ne_download_occTest

Download quitely from neearth data (modified from original package)
.status.tracker.and.escaping

Workflow status tracker
.nearestcell3

SeaLand reassignment
geoOutliers

Detect geographic outliers
.checkPolygonsGEOS2

Check polygon geometry
rm.all

Remove all objects
occFilter

Filter occurrence records from occTest outputs
setTableNames

set table names internally
.coords2country

Extracts country ISO3 based on locations
getPointsOutAlphaHull

Generate Spatial object from Alpha Hull object
.checkdatastr2

Check data structure
setTestBlocks

Set the tests to run
findSpatialOutliers

Find outlying occurrence data in geographical space
geoEnvAccuracy

Coordinate accuracy
occSimpFilter

Runs tests and validates data
nativeStatusCtry

Check native and alien ranges in countries
minimalSettings

Load minimal settings for occTest
occTest

Occurrence tests
showTests

Show implemented tests and types of tests
plot.occTest

Display the filtering process
splitSpname

Split joined species name
get_occTest_settings

Get occTest Settings
humanDetection

Hyper Human Influence
setTestTypes

Set the tests to run
showTableNames

Print naming conventions in occTest
countryStatusRangeAnalysis

Range analysis
defaultSettings

load default settings for occTest