Spatial Metrics and Habitat Conversion for Extinction Risk Assessment

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Documentation for package ‘mappingAS’ version 1.13.2

• DESCRIPTION file
• User guides, package vignettes and other documentation
• Package NEWS
• Package README

Help Pages

assessment_report	Narrative conservation-assessment report for one species
assess_species	Assess one or many species: EOO, AOO, MapBiomas conversion and fire
calc_aoo	Area of Occupancy (AOO) via occupied grid cells
calc_eoo	Extent of Occurrence (EOO) via minimum convex polygon
calc_locations	Estimate of number of locations (occupied-grid-cell method, optionally protected-area aware)
calc_subpop	Estimate of number of subpopulations (circular-buffer method)
class_table	Per-class MapBiomas composition table (every class) for an assessment
cover_timeseries	MapBiomas land-cover composition over time for a polygon
esri_legend	Sentinel-2 / Esri global 10 m land-cover legend
export_ranges	Export EOO and AOO as spatial files (shapefile or GeoPackage)
factsheet_html	Standalone HTML species factsheet with user metadata and photos
fire_areas	Area (km^2) per fire value from a cropped fire raster
fire_palette	Sequential palette for fire frequency (YlOrRd)
fire_raster_local	Crop a MapBiomas Fire raster to an area of interest (local backend)
fire_timeseries	Burned-area time series for a polygon (% of range x year)
fire_timeseries_for_species	Burned-area time series for one assessed species (EOO or AOO)
iucn_category_B	Provisional IUCN Red List Criterion B category from range size
iucn_criterion_B	Apply IUCN Red List Criterion B (size thresholds plus sub-criteria)
map_species	Interactive map of a species' points, EOO and AOO (MapBiomas + fire)
map_static	Publication-ready static map of a species (MapBiomas + EOO + AOO + points)
mas_plotly	Turn a mappingAS chart into an interactive plotly widget
mb_class_areas_gee	MapBiomas class areas via Google Earth Engine (optional backend)
mb_class_areas_raster	Tabulate area per MapBiomas class from a cropped raster
mb_fire_url	Build a MapBiomas Fire (Fogo) GeoTIFF URL
mb_groups	Group lookup vectors for MapBiomas conservation groups
mb_initiatives	MapBiomas initiatives supported by mappingAS
mb_legend	Standardised MapBiomas legend with conservation groupings
mb_palette	Official MapBiomas colours for a set of class codes
mb_raster_local	Crop a MapBiomas LULC raster to an area of interest (local backend)
mb_source_url	Build the MapBiomas land-use GeoTIFF URL for a given year and initiative
mb_years	Years available for a MapBiomas initiative/collection
pa_table	Per-species table of Protected areas overlapping the range
plot_class_trendline	Regression trendline of one land-cover class through time
plot_conversion	Habitat composition chart (natural / altered / water / other) for EOO and AOO
plot_conversion_donut	MapBiomas composition donut charts (EOO and AOO)
plot_fire_timeseries	Bar/line chart of burned area (%) over time
plot_protection	Protection chart (inside vs outside Protected areas) for EOO and AOO
plot_timeseries	Stacked-area chart of land-cover percentage over time
protected_areas	Read Protected areas intersecting an area of interest
read_occurrences	Read species occurrence points from XLSX, CSV or vector files
run_app	Launch the mappingAS Shiny application
s2_raster_local	Crop a Sentinel-2 / Esri LULC mosaic to an area of interest
s2_source_url	Build the Sentinel-2 / Esri land-cover GeoTIFF URL for a tile and year
s2_years	Years available for the global Sentinel-2 / Esri land-cover series
summarise_conversion	Summarise habitat conversion from MapBiomas class areas
summarise_fire	Summarise fire pressure inside a range
summarise_protected	Overlap between a species' range and federal Protected areas
timeseries_for_species	Land-cover time series for one assessed species (EOO or AOO)
vouchers_from_occ	Build examined-voucher strings from occurrence attributes
wdpa_areas	Read World Database on Protected Areas polygons intersecting an area
wdpa_query_url	Default WDPA ArcGIS FeatureServer query endpoint