Package: mapme.biodiversity 0.9.3.9000

Darius A. Görgen

mapme.biodiversity: Efficient Monitoring of Global Biodiversity Portfolios

Biodiversity areas, especially primary forest, serve a multitude of functions for local economy, regional functionality of the ecosystems as well as the global health of our planet. Recently, adverse changes in human land use practices and climatic responses to increased greenhouse gas emissions, put these biodiversity areas under a variety of different threats. The present package helps to analyse a number of biodiversity indicators based on freely available geographical datasets. It supports computational efficient routines that allow the analysis of potentially global biodiversity portfolios. The primary use case of the package is to support evidence based reporting of an organization's effort to protect biodiversity areas under threat and to identify regions were intervention is most duly needed.

Authors:Darius A. Görgen [aut, cre], Om Prakash Bhandari [aut], Andreas Petutschnig [ctb]

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mapme.biodiversity.pdf |mapme.biodiversity.html
mapme.biodiversity/json (API)
NEWS

# Install 'mapme.biodiversity' in R:
install.packages('mapme.biodiversity', repos = c('https://mapme-initiative.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/mapme-initiative/mapme.biodiversity/issues

On CRAN:

environmenteogismapmespatialsustainability

9.39 score 33 stars 300 scripts 779 downloads 95 exports 48 dependencies

Last updated 8 days agofrom:832145f946. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 29 2024
R-4.5-winOKOct 29 2024
R-4.5-linuxOKOct 29 2024
R-4.4-winOKOct 29 2024
R-4.4-macOKOct 29 2024
R-4.3-winOKOct 29 2024
R-4.3-macOKOct 29 2024

Exports:available_indicatorsavailable_resourcescalc_biodiversity_intactness_indexcalc_biomecalc_burned_areacalc_deforestation_driverscalc_drought_indicatorcalc_ecoregioncalc_elevationcalc_exposed_population_acledcalc_exposed_population_ucdpcalc_fatalities_acledcalc_fatalities_ucdpcalc_gsw_changecalc_gsw_occurrencecalc_gsw_recurrencecalc_gsw_seasonalitycalc_gsw_time_seriescalc_gsw_transitionscalc_humanfootprintcalc_indicatorscalc_ipbes_biomescalc_irr_carboncalc_key_biodiversity_areacalc_landcovercalc_man_carboncalc_mangroves_areacalc_population_countcalc_precipitation_chelsacalc_precipitation_chirpscalc_precipitation_wccalc_slopecalc_soilpropertiescalc_species_richnesscalc_temperature_max_wccalc_temperature_min_wccalc_traveltimecalc_traveltime_2000calc_treecover_areacalc_treecover_area_and_emissionscalc_treecoverloss_emissionscalc_tricalc_vul_carboncheck_available_yearscheck_enginecheck_namespacecheck_statsget_accessibility_2000get_acledget_biodiversity_intactness_indexget_chelsaget_chirpsget_esalandcoverget_fritz_et_alget_gfw_emissionsget_gfw_lossyearget_gfw_treecoverget_global_surface_water_changeget_global_surface_water_occurrenceget_global_surface_water_recurrenceget_global_surface_water_seasonalityget_global_surface_water_transitionsget_gmwget_gsw_time_seriesget_humanfootprintget_ipbes_biomesget_irr_carbonget_iucnget_key_biodiversity_areasget_man_carbonget_mcd64a1get_nasa_graceget_nasa_srtmget_nelson_et_alget_resourcesget_soilgridsget_teowget_ucdp_gedget_vul_carbonget_worldclim_max_temperatureget_worldclim_min_temperatureget_worldclim_precipitationget_worldpopmake_footprintsmake_global_gridmapme_optionsportfolio_longportfolio_wideprep_resourcesread_portfolioregister_indicatorregister_resourceselect_enginespds_existswrite_portfolio

Dependencies:askpassclassclassIntclicodetoolscpp11curlDBIdigestdplyre1071fansifurrrfuturegenericsglobalsgluehttr2jsonliteKernSmoothlifecyclelistenvmagrittrMASSopensslparallellypillarpkgconfigproxypurrrR6rappdirsRcpprlangs2sfstringistringrsysterratibbletidyrtidyselectunitsutf8vctrswithrwk

Quickstart

Rendered fromquickstart.Rmdusingknitr::rmarkdownon Oct 29 2024.

Last update: 2024-08-08
Started: 2023-06-29

Terminology

Rendered fromterminology.Rmdusingknitr::rmarkdownon Oct 29 2024.

Last update: 2024-05-03
Started: 2022-03-30

Readme and manuals

Help Manual

Help pageTopics
Accessibility to Cities in 2000accessibility_2000 get_accessibility_2000
Armed Conflict Location & Event Data (ACLED)acled get_acled
Calculate Biodiversity Intactness Indexbiodiversity_intactness_index_indicator calc_biodiversity_intactness_index
Biodiversity Intactness Indexbiodiversity_intactness_index_resource get_biodiversity_intactness_index
Calculate biomes statistics (TEOW) based on WWFbiome calc_biome
Calculate Monthly Burned Area based on MODIS (MCD64A1)burned_area calc_burned_area
Calculate population exposed to violent conflict from ACLEDcalc_exposed_population_acled
Calculate carbon statisticscalc_irr_carbon calc_man_carbon calc_vul_carbon carbon_indicators
Carbon Layerscarbon_resources get_irr_carbon get_man_carbon get_vul_carbon
Helper to check yearly availabilitycheck_available_years
Checks if namespace is availablecheck_namespace
Climatologies at High resolution for the Earth Land Surface Areas (CHELSA)chelsa get_chelsa
Climate Hazards Group InfraRed Precipitation with Station data (CHIRPS)chirps get_chirps
Calculate deforestation driverscalc_deforestation_drivers deforestation_drivers
Calculate drought indicator statisticscalc_drought_indicator drought_indicator
Calculate terrestrial ecoregions statistics (TEOW) based on WWFcalc_ecoregion ecoregion
Calculate elevation statisticscalc_elevation elevation
Function to select processing enginescheck_engine check_stats engine select_engine
ESA Copernicus Global Land Cover layeresalandcover get_esalandcover
Calculate population exposed to violent conflict from UCDP GEDcalc_exposed_population_ucdp exposed_population_ucdp
Calculate number of fatalities of conflict events from ACLEDcalc_fatalities_acled fatalities_acled
Calculate number of fatalities of violent conflict from UCDP GEDcalc_fatalities_ucdp fatalities_ucpd
Drivers of deforestation for tropical forestsfritz_et_al get_fritz_et_al
Forest greenhouse gas emissionsget_gfw_emissions gfw_emissions
Year of forest loss occurrenceget_gfw_lossyear gfw_lossyear
Treecover for the year 2000get_gfw_treecover gfw_treecover
Global Surface Water Changeget_global_surface_water_change global_surface_water_change
Global Surface Water Occurrenceget_global_surface_water_occurrence global_surface_water_occurrence
Global Surface Water Recurrenceget_global_surface_water_recurrence global_surface_water_recurrence
Global Surface Water Seasonalityget_global_surface_water_seasonality global_surface_water_seasonality
Global Surface Water Transitionsget_global_surface_water_transitions global_surface_water_transitions
Global Mangrove Extent Polygonget_gmw gmw
Calculate Global Surface Water (GSW) Changecalc_gsw_change gsw_change
Calculate Global Surface Water (GSW) Occurrencecalc_gsw_occurrence gsw_occurrence
Calculate Global Surface Water (GSW) Recurrencecalc_gsw_recurrence gsw_recurrence
Calculate Global Surface Water (GSW) Seasonalitycalc_gsw_seasonality gsw_seasonality
Calculate Global Surface Water Time Seriescalc_gsw_time_series gsw_time_series_indicator
Helper function to download Global Surface Water (GSW) yearly time series dataget_gsw_time_series gsw_time_series_resource
Calculate Global Surface Water (GSW) Transitionscalc_gsw_transitions gsw_transitions
Calculate human footprint statisticscalc_humanfootprint humanfootprint_indicator
Terrestrial Human Foootprintget_humanfootprint humanfootprint_resource
Register or list indicators in mapme.biodiversityavailable_indicators indicators register_indicator
Calculate areal statistics for IBPES Biomescalc_ipbes_biomes ipbes_biome_stats
Terrestrial and Aquatic Biomesget_ipbes_biomes ipbes_biomes
IUCN Red List of Threatened Speciesget_iucn iucn
Calculate Key Biodiversity Areascalc_key_biodiversity_area key_biodiversity_areas_indicator
Key Biodiversity Areasget_key_biodiversity_areas key_biodiversity_areas_resource
Calculate area of different landcover classescalc_landcover landcover
Create footprints for vector or raster data setsmake_footprints
Helper to create a grid of regular resolution and CRSmake_global_grid
Calculate mangrove extent based on Global Mangrove Watch (GMW)calc_mangroves_area mangroves_area
Portfolio methods for mapme.biodiversitycalc_indicators get_resources mapme mapme_options prep_resources
MODIS Burned Area Monthly (MCD64A1)get_mcd64a1 mcd64a1
NASA GRACE-based Drought Indicator layerget_nasa_grace nasa_grace
NASADEM HGT v001get_nasa_srtm nasa_srtm
Accessibility to Cities layerget_nelson_et_al nelson_et_al
Calculate population count statisticscalc_population_count population_count
Portfolio methodsportfolio portfolio_long portfolio_wide read_portfolio write_portfolio
Calculate precipitation average based on CHELSAcalc_precipitation_chelsa precipitation_chelsa
Calculate precipitation sums based on CHIRPScalc_precipitation_chirps precipitation_chirps
Calculate precipitation statisticscalc_precipitation_wc precipitation_wc
Register or list resources in mapme.biodiversityavailable_resources register_resource resources
Calculate slope statisticscalc_slope slope
SoilGrids data layersget_soilgrids soilgrids
Calculate Zonal Soil Propertiescalc_soilproperties soilproperties
Check if a spatial data sets existsspds_exists
Species richness based on IUCN raster datacalc_species_richness species_richness
Calculate maximum temperature statisticscalc_temperature_max_wc temperature_max_wc
Calculate minimum temperature statistics based on WorldClimcalc_temperature_min_wc temperature_min_wc
Terrestrial Ecoregions of the World (TEOW) Polygonget_teow teow
Calculate accessibility statisticscalc_traveltime traveltime
Calculate accessibility statistics for the year 2000calc_traveltime_2000 traveltime_2000
Calculate treecover statisticscalc_treecover_area treecover_area
Calculate treeloss statisticscalc_treecover_area_and_emissions treecover_area_and_emissions
Calculate emission statisticscalc_treecoverloss_emissions treecoverloss_emissions
Calculate Terrain Ruggedness Index (TRI) statisticscalc_tri tri
UCDP Georeferenced Event Dataset (UCDP GED)get_ucdp_ged ucdp_ged
Downloads WorldClim Maximum Temperature layerget_worldclim_max_temperature worldclim_max_temperature
Downloads WorldClim Minimum Temperature layerget_worldclim_min_temperature worldclim_min_temperature
Downloads WorldClim Mean Precipitation layerget_worldclim_precipitation worldclim_precipitation
Population Count layer for year 2000-2020get_worldpop worldpop