The four-step biomes workflow | 1. Occurrence records | 2. The 31 biome schemes | Next
Package: biomes 0.9.5
Hans Christian Groß
biomes: Reproducible Occurrence-to-Biome Classification Using 31 Global Biome Schemes
Reproducibly classifies occurrence records into biomes using 31 published global biome schemes compiled by Fischer and colleagues (2022) <doi:10.1111/geb.13574>, provided as harmonised raster layers at 10x10 km resolution globally. Includes functions to choose the most suitable biome scheme for a dataset by a data-driven ranking, to classify occurrence records, and to tabulate and visualise the result. Works with user-provided occurrences or a taxon name, in which case occurrences are downloaded from GBIF (<https://www.gbif.org>) and cleaned automatically.
Authors:
biomes_0.9.5.tar.gz
biomes_0.9.5.zip(r-4.7-any)biomes_0.9.5.zip(r-4.6-any)biomes_0.9.5.zip(r-4.5-any)
biomes_0.9.5.tgz(r-4.6-any)biomes_0.9.5.tgz(r-4.5-any)
biomes_0.9.5.tar.gz(r-4.7-any)biomes_0.9.5.tar.gz(r-4.6-any)
biomes_0.9.5.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
biomes/json (API)
| # Install 'biomes' in R: |
| install.packages('biomes', repos = c('https://azizka.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/azizka/biomes/issues
Pkgdown/docs site:https://azizka.github.io
Datasets:
- biomes_information - Metadata for the 31 biome schemes
- biomes_legend - Legend (biome names) for the 31 biome schemes
- bombacoideae_occurrences - Example occurrence dataset: Bombacoideae
Last updated from:dfc30fd508. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 228 | ||
| source / vignettes | OK | 264 | ||
| linux-release | OK | 224 | ||
| macos-release | OK | 173 | ||
| macos-oldrel | OK | 154 | ||
| windows-devel | OK | 175 | ||
| windows-release | OK | 164 | ||
| windows-oldrel | OK | 167 | ||
| wasm-release | OK | 143 |
Exports:biomes_classifybiomes_downloadbiomes_fullbiomes_getbiomes_infobiomes_occbiomes_rankbiomes_tabbiomes_visualise
Dependencies:backportsbitbit64checkmateclassclassIntclicliprcpp11crayondata.tableDBIdplyre1071farvergenericsggplot2gluegridExtragtablehmsisobandKernSmoothlabelinglifecyclemagrittrpillarpkgconfigprettyunitsprogressproxypurrrR6RColorBrewerRcppreadrrlangs2S7scalessfstringistringrterratibbletidyrtidyselecttidyterratzdbunitsutf8vctrsviridisviridisLitevroomwithrwk
Step 1: Assembly of occurrence records and biome schemes
Last update: 2026-09-28
Started: 2026-09-28
Step 2: Choice of a biome scheme
Goal | 1. Rank the schemes for your data | Rank within one biome definition | 2. Inspect the ranking | Next
Last update: 2026-09-28
Started: 2026-09-28
Step 3: Occurrences-to-biome classification
Goal | 1. Classify occurrence records into biomes | 2. Common variations | Next
Last update: 2026-09-28
Started: 2026-07-22
Step 4: Output and visualisation
Goal | 1. Tabulate records per biome | 2. Visualise the workflow | The whole workflow in one call | Done
Last update: 2026-09-28
Started: 2026-07-22
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Classify occurrences into biomes | biomes_classify |
| Download the packaged biome raster stack | biomes_download |
| One-call workflow: from taxon (or dataset) to table (and optional figure) | biomes_full |
| Load the packaged biome raster stack | biomes_get |
| Print metadata for selected biome definitions | biomes_info |
| Metadata for the 31 biome schemes | biomes_information |
| Legend (biome names) for the 31 biome schemes | biomes_legend |
| Download and clean GBIF occurrences for a taxon | biomes_occ |
| Rank biome schemes for a given occurrence dataset | biomes_rank |
| Tabulate the number of occurrences per biome | biomes_tab |
| Visualise the biomes workflow (ranking, map and biome composition) | biomes_visualise |
| Example occurrence dataset: Bombacoideae | bombacoideae_occurrences |