Package index • msens

Read

Fetch data, spatial and non-spatial, especially from APIs

get_species_by_feature(): Get species by feature

Taxonomic

Match taxa from APIs, especially World Register of Marine Species (WoRMS)

match_taxa(): Match taxa to spp.duckdb via cascade
wm_rest(): Query WoRMS REST API with multiple requests

Analyze

Analyses

Visualize

Plot and map Seascapes

add_cell_tiles(): Add an msens cell tile layer to a mapgl map
add_cells(): Add a raster cell layer to a map
add_pmfill(): Add a PMTile polygon fill layer to a map
add_pmlabel(): Add symbol label layers from sf point data
add_pmline(): Add PMTile outline line layers to a map
cell_stats(): Fetch msens cell value statistics for a SQL query
cell_tile_url(): Build an msens cell tile URL template
ggmap_areas(): Static ggplot map of labeled areas
ggplot_flower(): Build a flower-plot ggplot for component scores
map_cells(): Map raster cells with outlines and labels
map_pmtiles(): Map data on PMTile vector tiles
ms_basemap(): Basemap
plot_flower(): Flower plot of component scores (interactive or static)
tbl_species(): Species table (interactive DT or static gt)

Data

Lookups for easy reference

ply_boemrgns: Polygons of BOEM Regions
ply_boemrgns_s05: Polygons of BOEM Regions, simplified to 5%
ply_ecoareas: Polygons of EcoAreas
ply_ecoareas_s05: Polygons of EcoAreas
ply_ecorgns: Polygons of Ecoregions
ply_ecorgns_s05: Polygons of Ecoregions
ply_planareas: Polygons of Planning Areas
ply_planareas_s05: Polygons of Planning Areas, simplified to 5%

Other

Other functions not defined by the concepts above

cell_id_raster(): Cell-ID SpatRaster
cells_in_polygon(): Cells intersecting a polygon
cells_in_pra(): Cells belonging to a Program Area zone
compute_er_score(): Compute extinction risk score from extrisk_code and flags
mean_score(): Weighted mean of component scores
parse_noaa_status(): Parse NOAA protected_status field
scores_for_cells(): Aggregate component scores across a set of cells
scores_for_pra(): Precomputed component scores for a Program Area
sdm_db_con(): Connect to SDM DuckDB
sdm_db_path(): Path to SDM DuckDB
species_for_cells(): Species table aggregated across a set of cells
spp_db_con(): Connect to species taxonomy DuckDB