biogeo: Point Data Quality Assessment and Coordinate Conversion
Version 1.0

Functions for error detection and correction in point data quality datasets that are used in species distribution modelling. Includes functions for parsing and converting coordinates into decimal degrees from various formats.

AuthorMark Robertson
Date of publication2016-04-08 10:43:59
MaintainerMark P. Robertson <markrobertsonsa@gmail.com>
LicenseGPL (>= 3)
Version1.0
URL http://onlinelibrary.wiley.com/doi/10.1111/ecog.02118/abstract
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("biogeo")

Getting started

Package overview

Popular man pages

alternatives2: Determine where an incorrect point record should be placed by...
biogeo-package: Point data quality assessment and coordinate conversion
dat: Species collection records dataset
duplicatesexclude: Exclude duplicate point records per species per grid cell
getletter: Find letters in coordinates
renamefields: Rename particular fields in a dataframe
rjack: Outlier detection using the Reverse Jackknife
See all...

All man pages Function index File listing

Man pages

addmainfields: Adds required fields to a dataframe containing coordinates...
alternatives: Determine where an incorrect point record should be placed by...
alternatives2: Determine where an incorrect point record should be placed by...
alternativesenv: Determine where an incorrect point record should be placed by...
biogeo-package: Point data quality assessment and coordinate conversion
checkdatastr: Checks data structure
coord2numeric: Converts coordinates that are factors into numeric values
dat: Species collection records dataset
datm: A dataset for a marine species
dd2dmslat: Convert decimal degree coordinates for latitude into degrees,...
dd2dmslong: Convert decimal degree coordinates for longitude into...
dem: Digital elevation model 10 minute spatial resolution
dms2dd: Converts coordinates in degrees, minutes, seconds into...
dmsabs: Separates a coordinate string into degrees, minutes and...
dmsparse: Parse coordinate strings into separate degree, minute and...
dmsparsefmt: Parse coordinate string using a format string
duplicatesexclude: Exclude duplicate point records per species per grid cell
edat: Species collection records dataset and environmental...
elevcheck: Elevation check
env2stack: Read environmental variable rasters
errorcheck: Identifies errors in a dataset of point records
fieldsmissing: Determines whether any of the required fields are missing...
finddecimals: Find coordinates that are in decimal degrees
fmtcheck: Coordinate string format check
gbifdat: A dataset of records from GBIF
geo2envid: Interactive plot to explore points in geographical and...
geo2envpca: Interactive plot to explore points in geographical and...
getextent: Get the extent of an object
getformat: Get formats of coordinates
getletter: Find letters in coordinates
keepmainfields: Keep main fields in a dataframe.
missingcoords: Finds indices of records in a dataset where the coordinates...
missingvalsexclude: Excludes records with missing values for points
modified: Identify records that were modified between two dates
modifiedtoday: Identify records that were modified today
msk60: msk60
nearestcell: Assigns points that fall into the sea to the centre of the...
outliers: Detects outliers using values extracted from an environmental...
parsecoords: Parse coordinates into separate fields
places: A dataset of localities
plotsetup: Produces devices for plotting
points2shape: Save data to a points shape file
pointsworld: Plots point records on a world map using their latitude and...
precisioncheck: Check the precision of the coordinates
precisionenv: Check precision of records
quickclean: Automated data cleaning
quickrich: Perform error checks and produce richness map
renamefields: Rename particular fields in a dataframe
richness: Produced a species richness map
richnessmap: Map of the number of species or number of records per grid...
rjack: Outlier detection using the Reverse Jackknife
sep: Separate coordinates into degrees, minutes and seconds
speciescount: Count number of records per species
substddmm: Swap degrees and minutes in a coordinate
uniqueformats: List unique coordinate formats
wclim: Returns Worldclim bioclimatic variable names
world: World country polygons

Functions

addmainfields Man page Source code
alternatives Man page Source code
alternatives2 Man page Source code
alternativesenv Man page Source code
biogeo Man page
biogeo-package Man page
checkdatastr Man page Source code
coord2numeric Man page Source code
dat Man page
datm Man page
dd2dmslat Man page Source code
dd2dmslong Man page Source code
dem Man page
dms2dd Man page Source code
dmsabs Man page Source code
dmsparse Man page Source code
dmsparsefmt Man page Source code
duplicatesexclude Man page Source code
edat Man page
elevcheck Man page Source code
env2stack Man page Source code
errorcheck Man page Source code
fieldsmissing Man page Source code
finddecimals Man page Source code
fmtcheck Man page Source code
gbifdat Man page
geo2envid Man page Source code
geo2envpca Man page Source code
getextent Man page Source code
getformat Man page Source code
getletter Man page Source code
keepmainfields Man page Source code
missingcoords Man page Source code
missingvalsexclude Man page Source code
modified Man page Source code
modifiedtoday Man page Source code
msk60 Man page
nearestcell Man page Source code
outliers Man page Source code
parsecoords Man page Source code
places Man page
plotsetup Man page Source code
points2shape Man page Source code
pointsworld Man page Source code
precisioncheck Man page Source code
precisionenv Man page Source code
quickclean Man page Source code
quickrich Man page Source code
renamefields Man page Source code
richness Man page Source code
richnessmap Man page Source code
rjack Man page Source code
sep Man page Source code
speciescount Man page Source code
substddmm Man page Source code
uniqueformats Man page Source code
wclim Man page Source code
world Man page

Files

inst
inst/extdata
inst/extdata/placestest.csv
inst/doc
inst/doc/Biogeo_Tutorial.pdf
inst/doc/tutorial_biogeo.r
NAMESPACE
data
data/world.rda
data/edat.rda
data/gbifdat.rda
data/msk60.rda
data/places.rda
data/dat.rda
data/datm.rda
data/dem.rda
data/datalist
R
R/checkdatastr.R
R/plotsetup.R
R/dd2dmslat.R
R/precisionenv.R
R/coord2numeric.R
R/dmsparsefmt.R
R/uniqueformats.R
R/alternatives.R
R/outliers.R
R/fmtcheck.R
R/points2shape.R
R/addmainfields.R
R/missingvalsexclude.R
R/geo2envpca.R
R/nearestcell.R
R/richnessmap.R
R/getformat.R
R/geo2envid.R
R/sep.R
R/finddecimals.R
R/dms2dd.R
R/precisioncheck.R
R/parsecoords.R
R/alternativesenv.R
R/rjack.R
R/elevcheck.R
R/renamefields.R
R/getextent.R
R/env2stack.R
R/alternatives2.R
R/pointsworld.R
R/quickrich.R
R/modified.R
R/modifiedtoday.R
R/dd2dmslong.R
R/missingcoords.R
R/speciescount.R
R/getletter.R
R/keepmainfields.R
R/dmsparse.R
R/duplicatesexclude.R
R/errorcheck.R
R/richness.R
R/quickclean.R
R/wclim.R
R/dmsabs.R
R/fieldsmissing.R
R/substddmm.R
MD5
DESCRIPTION
man
man/speciescount.Rd
man/places.Rd
man/pointsworld.Rd
man/geo2envpca.Rd
man/getextent.Rd
man/modifiedtoday.Rd
man/getletter.Rd
man/substddmm.Rd
man/uniqueformats.Rd
man/biogeo-package.Rd
man/alternativesenv.Rd
man/datm.Rd
man/rjack.Rd
man/quickrich.Rd
man/edat.Rd
man/missingcoords.Rd
man/checkdatastr.Rd
man/richnessmap.Rd
man/env2stack.Rd
man/geo2envid.Rd
man/getformat.Rd
man/world.Rd
man/elevcheck.Rd
man/gbifdat.Rd
man/plotsetup.Rd
man/parsecoords.Rd
man/sep.Rd
man/duplicatesexclude.Rd
man/fieldsmissing.Rd
man/dd2dmslong.Rd
man/errorcheck.Rd
man/addmainfields.Rd
man/dmsabs.Rd
man/msk60.Rd
man/coord2numeric.Rd
man/renamefields.Rd
man/dat.Rd
man/richness.Rd
man/quickclean.Rd
man/modified.Rd
man/fmtcheck.Rd
man/precisionenv.Rd
man/dmsparse.Rd
man/missingvalsexclude.Rd
man/finddecimals.Rd
man/dem.Rd
man/alternatives.Rd
man/dms2dd.Rd
man/points2shape.Rd
man/nearestcell.Rd
man/dd2dmslat.Rd
man/precisioncheck.Rd
man/alternatives2.Rd
man/keepmainfields.Rd
man/dmsparsefmt.Rd
man/outliers.Rd
man/wclim.Rd
biogeo documentation built on May 19, 2017, 8:03 a.m.

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