This repository contains the functionality to standardize bird tracking data from the LifeWatch GPS tracking network for large birds so these can be published on Movebank, Zenodo, GBIF and OBIS. For reusable functions, see the movepub R package.
| Title | System | Started | Ended | Movebank | Zenodo | GBIF | OBIS |
|---|---|---|---|---|---|---|---|
| BOP_RODENT - Rodent specialized birds of prey (Circus, Asio, Buteo) in Flanders (Belgium) | Ornitela | 2020 | active | 1278021460 | DOI | GBIF | NA |
| CURLEW_VLAANDEREN - Eurasian curlews (Numenius arquata, Scolopacidae) breeding in Flanders (Belgium) | Ornitela | 2020 | active | 1841091905 | DOI | GBIF | OBIS |
| DELTATRACK - Herring gulls (Larus argentatus, Laridae) and Lesser black-backed gulls (Larus fuscus, Laridae) breeding at Neeltje Jans (Netherlands) | Ornitela | 2020 | active | 1258895879 | DOI | GBIF | OBIS |
| H_GRONINGEN - Western marsh harriers (Circus aeruginosus, Accipitridae) breeding in Groningen (the Netherlands) | UvA-BiTS | 2012 | 2018 | 922263102 | DOI | GBIF | NA |
| HG_JUVENILE - Juvenile herring gulls (Larus argentatus, Laridae) hatched at the southern North Sea coast (Belgium) | Interrex | 2022 | active | 2217728245 | |||
| HG_OOSTENDE - Herring gulls (Larus argentatus, Laridae) breeding at the southern North Sea coast (Belgium) | UvA-BiTS | 2013 | active | 986040562 | DOI | GBIF | OBIS |
| LBBG_ADULT - Lesser black-backed gulls (Larus fuscus, Laridae) breeding in Belgium | Ornitela | 2022 | active | 2298738353 | DOI | GBIF | OBIS |
| LBBG_JUVENILE - Juvenile lesser black-backed gulls (Larus fuscus, Laridae) hatched in Zeebrugge (Belgium) | Ornitela | 2020 | active | 1259686571 | DOI | GBIF | OBIS |
| LBBG_ZEEBRUGGE - Lesser black-backed gulls (Larus fuscus, Laridae) breeding at the southern North Sea coast (Belgium and the Netherlands) | UvA-BiTS | 2013 | active | 985143423 | DOI | GBIF | OBIS |
| MEDGULL_ANTWERPEN - Mediterranean gulls (Ichthyaetus melanocephalus, Laridae) breeding near Antwerp (Belgium) | Ornitela | 2021 | active | 1609400843 | DOI | GBIF | OBIS |
| MH_ANTWERPEN - Western marsh harriers (Circus aeruginosus, Accipitridae) breeding near Antwerp (Belgium) | UvA-BiTS | 2018 | active | 938783961 | DOI | GBIF | NA |
| MH_WATERLAND - Western marsh harriers (Circus aeruginosus, Accipitridae) breeding near the Belgium-Netherlands border | UvA-BiTS | 2013 | 2018 | 604806671 | DOI | GBIF | NA |
| O_AMELAND - Eurasian oystercatchers (Haematopus ostralegus, Haematopodidae) breeding on Ameland (the Netherlands) | UvA-BiTS | 2010 | 2013 | 1605803389 | DOI | GBIF | OBIS |
| O_ASSEN - Eurasian oystercatchers (Haematopus ostralegus, Haematopodidae) breeding in Assen (the Netherlands) | UvA-BiTS | 2018 | 2019 | 1605797471 | DOI | GBIF | OBIS |
| O_BALGZAND - Eurasian oystercatchers (Haematopus ostralegus, Haematopodidae) wintering on Balgzand (the Netherlands) | UvA-BiTS | 2010 | 2014 | 1605798640 | DOI | GBIF | OBIS |
| O_SCHIERMONNIKOOG - Eurasian oystercatchers (Haematopus ostralegus, Haematopodidae) breeding on Schiermonnikoog (the Netherlands) | UvA-BiTS | 2008 | 2014 | 1605799506 | DOI | GBIF | OBIS |
| O_VLIELAND - Eurasian oystercatchers (Haematopus ostralegus, Haematopodidae) breeding and wintering on Vlieland (the Netherlands) | UvA-BiTS | 2016 | 2021 | 1605802367 | DOI | GBIF | OBIS |
| O_WESTERSCHELDE - Eurasian oystercatchers (Haematopus ostralegus, Haematopodidae) breeding in East Flanders (Belgium) | UvA-BiTS | 2018 | 2020 | 1099562810 | DOI | GBIF | OBIS |
| SPOONBILL_VLAANDEREN - Eurasian spoonbills (Platalea leucorodia, Threskiornithidae) in Flanders (Belgium) | Ornitela | 2022 | active | 2313947453 | DOI | GBIF | OBIS |
Steps to upload data to Zenodo are described here.
Before we adopted the workflow to publish on Movebank and Zenodo, two datasets were published on GBIF as source datasets (https://doi.org/10.15468/02omly and https://doi.org/10.15468/rbguhj). Those have since been deleted, since these are better represented by the datasets listed above (HG_OOSTENDE, LBBG_ZEEBRUGGE and MH_WATERLAND).
- Prepare Uva-BiTS (meta)data for Movebank upload
- Prepare Ornitela (meta)data for Movebank upload
- Prepare Interrex (meta)data for Movebank upload
- Prepare Movebank data for Zenodo upload (make frictionless)
The repository structure is based on Cookiecutter Data Science. Files and directories indicated with GENERATED should not be edited manually, those with IGNORED are ignored by git and will not appear on GitHub.
├── README.md : Description of this repository
├── LICENSE : Repository license
├── bird-tracking.Rproj : RStudio project file
├── .gitignore : Files and directories to be ignored by git
│
├── src : Scripts to process tracking data for Movebank
│ └── functions : Custom functions used in scripts
|
├── sql : Queries to transform tracking data to Movebank format
│
└── data
└── processed : Data that can be uploaded to Movebank GENERATED, large files IGNORED
The repository used to include SQL and CSS for CartoDB maps and the source code for a bird tracking explorer. These are accessible in the version history of this repository.