biomes 0.9.3
- Initial CRAN submission.
- Provides raster layers of 31 global biome schemes from Fischer et
al. (2022, Global Ecology and Biogeography 31(11): 2172-2183)
at 10 x 10 km resolution globally.
- Terminology: schemes are addressed by their biome scheme
number (1-31). The
scheme argument of
biomes_classify(), biomes_rank(),
biomes_visualise() and biomes_full() replaces
the former layer argument; biomes_rank()
returns the columns scheme/scheme_name and the
attribute best_scheme; biomes_tab() returns a
scheme column; biomes_information uses the
column scheme_number.
- Core functions:
biomes_classify() (assign occurrence
records to biome classes), biomes_rank() (rank schemes by
coverage, effective number of classes, and granularity),
biomes_tab() (tabulate records per biome class),
biomes_visualise() (combined figure with rank,
map and barplot panels, selectable via
panels), biomes_full() (one-call wrapper),
biomes_get() (load the raster stack),
biomes_info() (per-scheme metadata),
biomes_occ() (optional GBIF download with coordinate
cleaning).
biomes_visualise() now reproduces the full workflow
figure: the rank panel shows the composite score plus the
raw criteria it averages (coverage, effective classes, granularity), the
map panel shows the occurrence map (with an adaptive
legend), and the barplot panel shows records and species
per biome class back-to-back with centred labels. With
combine = FALSE the individual panels are returned as a
named list instead of one lettered figure. The former
biomes_show_rank() has been removed (its ranking view is
the rank panel).biomes_full(): the scheme argument also
accepts a scheme type ("climate",
"vegetation", "land_cover",
"ecoregion", "integrative",
"anthropogenic") to pick the best-fitting scheme within
that group, in addition to an integer 1:31 and
"best". A new plot argument controls which
figure(s) are built: "none" (default, no figure, the
fastest option), "all" (the combined lettered figure in
$plot), or a subset of
c("rank", "map", "barplot") (returned individually, without
panel letters, in $rank, $map and
$barplot).- The ~36 MB biome raster stack is not bundled inside the package. It
is hosted as a GitHub release asset and downloaded once into a per-user
cache directory (
tools::R_user_dir()) on first use;
biomes_download() performs (or refreshes) this download
explicitly. This keeps the installed package well under CRAN’s size
limit.
- Four vignettes follow the four-step workflow (
step1- ..
step4-):
- assembling occurrence records and biome schemes, (2) choosing a
biome scheme, (3) occurrences-to-biome classification, and (4) output
and visualisation.