The <scp>bien r</scp> package: A tool to access the Botanical Information and Ecology Network (BIEN) database
Why is this work in the frame?
A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.
No Canadian affiliation. An affiliation-only frame — the usual design — would never have seen this work. It is one of the works that make the case for inverting the frame.
Machine scores (provisional)
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
- Teacher spread
- 0.317 · how far apart the two teachers sit on this one work
- Validation status
score_only:v0-immature-baseline· verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it
Abstract
Abstract There is an urgent need for large‐scale botanical data to improve our understanding of community assembly, coexistence, biogeography, evolution, and many other fundamental biological processes. Understanding these processes is critical for predicting and handling human‐biodiversity interactions and global change dynamics such as food and energy security, ecosystem services, climate change, and species invasions. The Botanical Information and Ecology Network (BIEN) database comprises an unprecedented wealth of cleaned and standardised botanical data, containing roughly 81 million occurrence records from c . 375,000 species, c . 915,000 trait observations across 28 traits from c . 93,000 species, and co‐occurrence records from 110,000 ecological plots globally, as well as 100,000 range maps and 100 replicated phylogenies (each containing 81,274 species) for New World species. Here, we describe an r package that provides easy access to these data. The bien r package allows users to access the multiple types of data in the BIEN database. Functions in this package query the BIEN database by turning user inputs into optimised PostgreSQL functions. Function names follow a convention designed to make it easy to understand what each function does. We have also developed a protocol for providing customised citations and herbarium acknowledgements for data downloaded through the bien r package. The development of the BIEN database represents a significant achievement in biological data integration, cleaning and standardization. Likewise, the bien r package represents an important tool for open science that makes the BIEN database freely and easily accessible to everyone.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
The record
- Venue
- Methods in Ecology and Evolution
- Topic
- Species Distribution and Climate Change
- Field
- Environmental Science
- Canadian institutions
- —
- Funders
- European Research CouncilAcademy of Natural Sciences of Drexel UniversityBhabha Atomic Research CentreUniversity of CaliforniaUniversity of California, Santa BarbaraMinistry of Business, Innovation and EmploymentAgence Nationale de Sécurité du Médicament et des Produits de SantéCanada Foundation for InnovationAmerican Museum of Natural HistoryCentre International de Mathématiques et Informatique de ToulouseFondation pour la Recherche sur la BiodiversiteCommonwealth Health Research BoardVillum FondenNational Science Foundation
- Keywords
- R packageDatabaseEcologyGeographyComputer scienceWorld Wide WebBiology
- Has abstract in OpenAlex
- yes