Package index

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

sdm_sql_b64()

Encode SQL as urlsafe base64 for the TiTiler sql= query parameter

species_for_cells()

Species table aggregated across a set of cells

spp_db_con()

Connect to species taxonomy DuckDB

stac_build()

Build the full static STAC catalog for a version

stac_cfg()

Default configuration (base URLs) for STAC generation

stac_dataset_collection()

Dataset Collection node

stac_model_cell_item()

Model-surface Item for a (DuckDB-backed) dataset

stac_root_catalog()

Root Catalog node

stac_sdm_props()

Build the SDM properties block shared by Collections and Items

stac_season_cog_item()

Seasonal per-species Item from the NCCOS season-COG metadata

stac_version_collection()

Version Collection node (parent of the dataset Collections)