polli-labs/linnaeus

Deep learning framework for taxonomic image classification, designed for biodiversity monitoring applications.

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edwbaker/edwbaker.github.io

I am an interdisciplinary researcher investigating how technology can be used to monitor biodiversity, in particular using bioacoustic and ecoacoustic approaches.

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luomus/finbif

R interface for the Finnish Biodiversity Information Facility (FinBIF) API

Language: R - Size: 73.4 MB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 7 - Forks: 1

SpeciesFileGroup/taxonworks

Workbench for biodiversity informatics.

Language: Ruby - Size: 99.4 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 102 - Forks: 30

riparias/gbif-alert

GBIF Alert is a GBIF occurrence based alert system.

Language: Python - Size: 21 MB - Last synced at: 2 days ago - Pushed at: 25 days ago - Stars: 10 - Forks: 3

pyinat/pyinaturalist

Python client for iNaturalist

Language: Python - Size: 14.7 MB - Last synced at: 5 days ago - Pushed at: 6 days ago - Stars: 148 - Forks: 17

funecology/fundiversity

📦 R package to compute functional diversity indices efficiently

Language: R - Size: 12.1 MB - Last synced at: 3 days ago - Pushed at: about 2 months ago - Stars: 39 - Forks: 3

gbif/ipt

GBIF Integrated Publishing Toolkit (IPT)

Language: Java - Size: 179 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 132 - Forks: 61

earth-chris/elapid

Species distribution modeling tools, including a python implementation of Maxent

Language: Python - Size: 6.39 MB - Last synced at: about 20 hours ago - Pushed at: 6 months ago - Stars: 63 - Forks: 11

ropensci/ReLTER

An Interface for the 'eLTER' Community

Language: R - Size: 74.5 MB - Last synced at: 2 days ago - Pushed at: 16 days ago - Stars: 13 - Forks: 6

b-cubed-eu/gcube

Simulation framework for biodiversity data cubes

Language: R - Size: 603 MB - Last synced at: 2 days ago - Pushed at: 4 months ago - Stars: 10 - Forks: 2

tdwg/dwc

Darwin Core standard for sharing of information about biological diversity.

Language: Jinja - Size: 5.89 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 227 - Forks: 74

ArctosDB/arctos

Arctos is a museum collections management system

Size: 68.3 MB - Last synced at: 18 days ago - Pushed at: 18 days ago - Stars: 66 - Forks: 13

luomus/laji

Frontend for Finnish Biodiversity Information Facility (FinBIF) data portal laji.fi (and other *.laji.fi frontends)

Language: TypeScript - Size: 41.1 MB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 7 - Forks: 0

bio-org-au/services

Grails 3 port of NSL services

Language: Groovy - Size: 6.03 MB - Last synced at: 23 days ago - Pushed at: 24 days ago - Stars: 2 - Forks: 0

BioGeoMacro/GIFT

:package: R package to extract data from Global Inventory of Floras and Traits (GIFT)

Language: R - Size: 30.5 MB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 18 - Forks: 1

OneZoom/OZtree

OneZoom Tree of Life Explorer

Language: HTML - Size: 333 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 101 - Forks: 21

gbif/dwc-api

Darwin Core term enumeration

Language: Java - Size: 6.49 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 7 - Forks: 1

josafatburmeister/BirdSongIdentification

Fully automated machine learning pipeline for bird sound recognition

Language: Jupyter Notebook - Size: 3.77 MB - Last synced at: 4 days ago - Pushed at: over 3 years ago - Stars: 26 - Forks: 5

adrientaudiere/MiscMetabar

R package MiscMetabar: Miscellaneous functions for metabarcoding analysis

Language: R - Size: 342 MB - Last synced at: 5 days ago - Pushed at: 5 days ago - Stars: 18 - Forks: 0

gnames/gnfinder

GNfinder finds scientific names in UTF8 texts, PDF files, MS Word/Excel documents, URLs etc.

Language: Go - Size: 205 MB - Last synced at: 3 days ago - Pushed at: 5 months ago - Stars: 50 - Forks: 5

ropensci/occCite

Querying database aggregators and citing primary sources of resulting occurrence records.

Language: HTML - Size: 20.9 MB - Last synced at: 3 days ago - Pushed at: 3 months ago - Stars: 23 - Forks: 5

beatybiodiversitymuseum/specify-edit-bot

Make bulk changes to a specify7 instance from a csv file

Language: Python - Size: 37.1 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0

leisux/ipybd

Powerful Data Cleaner For Biodiversity

Language: Python - Size: 85.8 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 20 - Forks: 9

bio-org-au/nsl-domain-plugin-g3

Grails 3 port of nsl-domain-plugin

Language: PLpgSQL - Size: 479 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

gbif/hp-beaty-biodiversity-museum

This repository is for the GBIF Hosted Portal for the Beaty Biodiversity Museum

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damianooldoni/notes

Collection of personal notes from conferences and workshops :memo:

Size: 8.17 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

mark-pitblado/dwca-router

Find a digital DwC occurrence record no matter where it lives

Language: TypeScript - Size: 421 KB - Last synced at: 5 days ago - Pushed at: 7 months ago - Stars: 1 - Forks: 0

pjoiner/DwC-A_dotnet

A simple Darwin Core Archive Reader for dotnet

Language: C# - Size: 8.36 MB - Last synced at: 11 days ago - Pushed at: 7 months ago - Stars: 0 - Forks: 1

pensoft/OpenBiodiv

Open Biodiversity Knowledge Management System

Language: HTML - Size: 242 MB - Last synced at: 6 months ago - Pushed at: about 2 years ago - Stars: 17 - Forks: 7

BelgianBiodiversityPlatform/python-dwca-reader

🐍 A Python package to read Darwin Core Archive (DwC-A) files.

Language: Python - Size: 733 KB - Last synced at: 6 days ago - Pushed at: 9 months ago - Stars: 46 - Forks: 21

MCZbase/DataShot_DesktopApp

Desktop application client intended to support an object-precapture-image-data workflow for capture of natural science collections data. See the wiki (https://github.com/MCZbase/DataShot_DesktopApp/wiki) for user documentation, or the README below for developer documentation.

Language: Java - Size: 16.3 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 4 - Forks: 3

fmichonneau/sok-marine-biodiversity

WIP: :crab: The state of knowledge of the US marine biodiversity :octopus:

Language: R - Size: 12.8 MB - Last synced at: 5 months ago - Pushed at: over 3 years ago - Stars: 3 - Forks: 1

hannahlowens/3DFishRichness

Scripts for "Depth Matters for Marine Diversity".

Language: R - Size: 51.8 KB - Last synced at: 3 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

ai4er-cdt/geograph

GeoGraph provides a tool for analysing habitat fragmentation and related problems in landscape ecology. GeoGraph builds a geospatially referenced graph from land cover or field survey data and enables graph-based landscape ecology analysis as well as interactive visualizations.

Language: Jupyter Notebook - Size: 792 MB - Last synced at: 3 days ago - Pushed at: over 1 year ago - Stars: 40 - Forks: 10

lsbjordao/Bull-ProFlora

Bull-ProFlora is a job queue system designed at CNCFlora/JBRJ (Rio de Janeiro, Brazil) to streamline species extinction risk assessments of Brazilian flora. Its architecture is tailored to handle large-scale data processing efficiently, ensuring seamless integration with the ProFlora system (https://proflora.jbrj.gov.br/).

Language: TypeScript - Size: 631 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0

BNHM/reservemapper

Mapping Biodiversity data on our natural reserves

Language: JavaScript - Size: 1.45 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 1 - Forks: 6

firms-gta/darwin_core_viewer

Generic Shiny app to map and plot Darwin Core files (from GBIF)

Language: R - Size: 15.1 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0

specify/specify6

Source Code for Specify 6, Biological Collections Management Platform

Language: Java - Size: 439 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 14 - Forks: 6

echinopscis/echinopscis-sample-vault

A sample obsidian vault, preconfigured for biodiversity informatics

Language: JavaScript - Size: 4.68 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 2

naturalis/trait-geo-diverse-dl

Ecological Niche Modelling Using Deep Learning

Language: Jupyter Notebook - Size: 10.2 GB - Last synced at: 3 months ago - Pushed at: about 6 years ago - Stars: 17 - Forks: 4

pieterprovoost/dwca-writer

Python package for writing Darwin Core Archives (DwC-A)

Language: Python - Size: 190 KB - Last synced at: 8 days ago - Pushed at: about 1 year ago - Stars: 5 - Forks: 2

echinopscis/echinopscis.github.io

Github pages website using petri-dish jekyll layout

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AmphibiaWeb/aw-assets

All downloadable material from AmphibiaWeb is organized here by website section

Size: 336 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 0

ScienceForChange/IctioPy 📦

Parser for ictio.org Citizen Observatory data for Amazon basin fish observation

Language: Python - Size: 91.8 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 3 - Forks: 1

biodiversitydata-se/SBDI4R

R package to search and access data made available through the Swedish biodiversity data infrastructure SBDI

Language: HTML - Size: 10.6 MB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 2

SpeciesFileGroup/taxonworks_api_scripts

Example scripts that reference the TaxonWorks API

Language: R - Size: 17.6 KB - Last synced at: 6 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 2

tdwg/dwc-qa

Public question and answer site for discussions about Darwin Core

Language: Shell - Size: 31.4 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 49 - Forks: 8

GBIF-Europe/nordic_oikos_2018_r

Scientific reuse of openly published biodiversity information: Programmatic access to and analysis of primary biodiversity information using R. Nordic Oikos 2018, pre-conference R workshop. Venue: 18. feb. 2018 10:00 - 19. feb. 2018 16:00, Trondheim

Language: HTML - Size: 160 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 5 - Forks: 4

naturalsolutions/GeoNature-atlas Fork of PnX-SI/GeoNature-atlas

Application WEB permettant de générer des fiches espèces publiques à partir d'observations faune/flore

Language: HTML - Size: 39.2 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

naturalsolutions/ecoReleve-Data

Open source biodiversity data entry software

Language: Python - Size: 194 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 7 - Forks: 16

rdmpage/biostor

Open access articles extracted from the Biodiversity Heritage Library

Language: PHP - Size: 5.12 MB - Last synced at: 17 days ago - Pushed at: almost 6 years ago - Stars: 5 - Forks: 2

pieterprovoost/python-eml

Python package containing dataclasses for the Ecological Metadata Language (EML) standard

Language: Python - Size: 329 KB - Last synced at: 8 days ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 0

Gelechiidae/gelechiidae.github.io

Main home page for Gelechiidae of The World

Size: 7.81 KB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

galerucinae/galerucinae.github.io

Main home page for Galerucinae of The World Digital Catalogue

Size: 7.81 KB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

jocelynpender/fna-query

Miscellaneous code for querying FNA Semantic MediaWiki

Language: HTML - Size: 53.1 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

alecamar/alecamar

I am currently an Adjunct Professor at the Federal University of São Carlos, at the Nature Science Centre (CCN), on the Lagoa do Sino campus

Size: 7.81 KB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

biomassives/Next-DatoCMS-Template Fork of Lorezz/Next-DatoCMS-Template

review portal for active sustainable community development projects

Language: JavaScript - Size: 1.32 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 0

GreenswayAB/BIRDS

:mag_right: :bird: A set of tools for Biodiversity Informatics in R

Language: HTML - Size: 29 MB - Last synced at: 5 days ago - Pushed at: almost 2 years ago - Stars: 5 - Forks: 1

jrfep/GS-svocc

Fit single visit occupancy models to data from camera trap and walking transects in the Gran Sabana, Venezuela

Language: R - Size: 17.4 MB - Last synced at: 3 days ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

bitem-heg-geneve/ebiodiv-matching-frontend

Language: Vue - Size: 17.9 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 1

naturalis/trait-geo-diverse-ungulates

Comparative analysis of abiotic niches in Ungulates

Language: R - Size: 2.52 GB - Last synced at: over 1 year ago - Pushed at: about 5 years ago - Stars: 1 - Forks: 4

rvanmazijk/botanical-collections

This repository houses all my plant collection data and metadata, both for personal and work-related collections.

Language: R - Size: 1.18 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

kcbrock/kcbrockresearch.com

Kelsey Brock's Personal Website; visit kcbrockresearch.com

Language: CSS - Size: 3.56 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

jocelynpender/flora-prepper

Preparing floras for morphological parsing and integration

Language: HTML - Size: 79.9 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

biodiversity-specimen-data/specimen-data-use-case

iDigBio API working group repository on obtaining biodiversity specimen data in R.

Language: HTML - Size: 31.1 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 9 - Forks: 4

marinebon/py-dwc-viz

Python Package for data analysis and visualisation for Darwin Core data, with plug-and-play from providers like OBIS and GBIF.

Language: Python - Size: 276 KB - Last synced at: 15 days ago - Pushed at: almost 2 years ago - Stars: 1 - Forks: 1

jewelcodes/usdm

Proof-of-concept species distribution modeling package intended for learning and experimentation

Language: Python - Size: 9.77 KB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0

lab42open-team/deco

This repository contains exemplary workflow using programming tools and libraries for data rescue of historical biodiversity data. These tools combine OCR and text mining approaches to retrieve valuable information like species, functional traits and environments.

Language: R - Size: 45.5 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 1

BioKIC/NEON-Biorepository-deprecated 📦

Development base for the NEON Biorepository Data Portal at Arizona State University

Language: PHP - Size: 127 MB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 11 - Forks: 4

parsons463/HiddenDiversity

This repository contains data and code from the manuscript, "Analysis of biodiversity data suggests that species are hidden in predictable places".

Language: R - Size: 17.5 MB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 2 - Forks: 0

bd-R/bdchecks-guide 📦

bdchecks R package user guide repo, constructed using bookdown, see:

Language: TeX - Size: 10.3 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0

beecycles/pinnacles_bee_biodiversity

We resurveyed Pinnacles National Park for native bee species and compared results to bee inventories completed 10 and 15 years earlier, as well as to similar efforts conducted across the U.S.

Language: PostScript - Size: 3.93 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 4 - Forks: 1

ivoborges/quercus-insignis

Language: R - Size: 97.7 KB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 1

pedrohbraga/IntroGitHubActions-Workshop

Language: HTML - Size: 20.1 MB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 1 - Forks: 2

naturalsolutions/Mission-Nature-mobile

Citizen science mobile plateform

Language: JavaScript - Size: 29.6 MB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 1 - Forks: 0

pjoiner/DwC-A_LINQPad_Driver

LINQPad Driver for Darwin Core Archive Files

Language: C# - Size: 2.8 MB - Last synced at: 14 days ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

niconoe/DarwinSQL

DarwinCore Archives expressed as SQLite

Size: 4.88 KB - Last synced at: 6 months ago - Pushed at: about 8 years ago - Stars: 1 - Forks: 0

GabrielRPalma/Shannon_index_ci_paper

R scripts and data set that can be used to reproduce the results presented in the paper "New confidence interval methods for Shannon index"

Size: 4.88 KB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

mikkohei13/Loxpyt

Nocmig bird sound detection

Language: Python - Size: 550 KB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 2 - Forks: 0

tylerjamesf/national-park-biodiversity

Biodiversity in National Parks Portfolio Project

Language: Jupyter Notebook - Size: 393 KB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

ian-flores/Deep-Learning-Species-Identification

Language: Jupyter Notebook - Size: 23.4 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 3 - Forks: 1

BioKIC/symbiota-tooltips Fork of arbolitoloco/symbiota-tooltips

An open API to help document Symbiota tools and terms

Language: Python - Size: 38.1 KB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 1

arbolitoloco/symbiota-tooltips

An open API to help document Symbiota tools and terms

Language: Python - Size: 39.1 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 2

thisishardik/srm-nature-vault-client

Accelerating Innovation for Rainforest Biodiversity Assessment in a Complex Ecosystem using Artificial Intelligence

Language: Python - Size: 868 KB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0

pjoiner/DwC-A_dotnet.Interactive

.NET Interactive Extensions for Darwin Core Archive file reader

Language: Jupyter Notebook - Size: 13.2 MB - Last synced at: about 1 month ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

Smithsonian/GBIF-Dataset-Explorer

R Package to explore datasets from the biodivesity aggregator GBIF. Digitization Program Office, OCIO

Language: R - Size: 756 KB - Last synced at: 28 days ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

naturalsolutions/GeoNature-citizen Fork of PnX-SI/GeoNature-citizen

Portail web d'inventaire citoyen de la biodiversité à destination du grand public

Language: TypeScript - Size: 54.5 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 1 - Forks: 2

arbolitoloco/symbiota-label-generator

Symbiota Label Format Generator Prototype

Language: JavaScript - Size: 178 KB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 3 - Forks: 0

niconoe/arabel

🕷️ Source code for the future Atlas of spiders of Belgium based on the ARABEL database

Language: Python - Size: 12 MB - Last synced at: 6 months ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0

abhishekwahane/hoot

Hoot is an owl call recognition app. It uses a deep learning model to classify incoming audio into respective owl species.

Language: Dart - Size: 118 MB - Last synced at: over 1 year ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 0

ekrimmel/idigbio-api-dq-geo

Example code using the iDigBio API in R. Presented during the ninth annual ADBC Summit, October 1-3, 2019, in Gainesville, Florida.

Language: HTML - Size: 752 KB - Last synced at: about 1 year ago - Pushed at: almost 6 years ago - Stars: 2 - Forks: 0

BelgianBiodiversityPlatform/BiodiversityBox

🖥️ A preconfigured appliance for biodiversity informatics work.

Size: 403 KB - Last synced at: 2 months ago - Pushed at: about 6 years ago - Stars: 3 - Forks: 0

mjy/path

a maze of twisty little ideas (about biodiversity informatics), all alike

Language: JavaScript - Size: 101 KB - Last synced at: 3 months ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0

roncanepa/idigbio-results-in-national-parks

Example code using the iDigBio API in R. Presented during the ninth annual ADBC Summit, October 1-3, 2019, in Gainesville, Florida.

Language: HTML - Size: 1.18 MB - Last synced at: about 1 year ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0

rdmpage/iucn-red-list-spatial-data

Converting IUCN Red List to GeoJSON

Size: 822 KB - Last synced at: 6 months ago - Pushed at: almost 8 years ago - Stars: 1 - Forks: 1

gbif-norway/dugnad Fork of umeldt/dugnad

Language: JavaScript - Size: 826 KB - Last synced at: about 1 year ago - Pushed at: almost 7 years ago - Stars: 1 - Forks: 1

GBIF-Europe/bold_sequence

Linking BOLD sequences to specimens in GBIF

Size: 7.81 KB - Last synced at: over 1 year ago - Pushed at: almost 8 years ago - Stars: 1 - Forks: 0

fgabriel1891/Ecological_Events_Miner

OldVersion of LiteratureMinerShiny APP, below link to access to the new repository

Language: HTML - Size: 74.3 MB - Last synced at: over 1 year ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 0

mikkohei13/biodiversity-browser

Single-page web application that visualizes 85 million Scandinavian nature observations from GBIF.

Language: JavaScript - Size: 120 KB - Last synced at: over 1 year ago - Pushed at: over 8 years ago - Stars: 0 - Forks: 0