Why Monitor Ecostation

Data Access?

Jorrit Poelen

29 Oct 2015 @ http://hackingmeasurements.berkeley.edu seminar

Ecostation Data Access Monitor (EDAM)

Develop methods to openly compare

ecological data richness /completeness of

(Island) Ecostations to promote open data

and tool re-use between researchers, citizen scientists, educators, foundations

and regulatory bodies.

contributors: Jonathan Wang, Nisreen Hejab,

Carlo Liquido, Vedant Saran, Jong-kai Yang,

Tong Zhang and Jorrit Poelen

`

Sea otter

Sea otter lunch(c) edward_rooks, some rights reserved (CC BY-NC)accessed at http://www.inaturalist.org/observations/563486 on Feb 4, 2015

Honey Bee Flower

(c) Richard Barnes, some rights reserved (CC BY-NC)accessed at http://www.inaturalist.org/observations/885255 on Oct 13, 2015

Insect

Insect'sParasite

(c) Cheryl Harleston, some rights reserved (CC BY-NC-SA)

accessed at http://www.inaturalist.org/observations/2020957 on Oct 13, 2015Background image: Slyusarev et al. (2015): Global Biotic Interactions food web map. figshare. http://dx.doi.org/10.6084/m9.figshare.1297762

Global Biotic Interactions (GloBI) is a collaborative, open source, open data project that makes existing species interaction datasets easy to discover and use for anyone, including you! GloBI is supported by the Encyclopedia of Life and is associated with Manylabs, Nerds for Nature, iNaturalist, GoMexSI and many more.

http://globalbioticinteractions.org

how to contribute data?

iNaturalist.org take a picture, describe the interaction.

GitHub.com fork/create a github template repo, add your data.

Share an open-access dataset using figshare.com,

zenodo.org (or similar) and send the DOI to us.

Publish an open-access (data) paper and share the

DOI with us.

Or, contact us and we'll figure something out.

GitHub for (GloBI) Data

how to access data?

download data archives (darwin core, neo4j db, ttl/rdf)

use library (javascript, R)

use web apis (fuseki/sparql, neo4j/cypher, globi/api)

use web apps (see http://blog.globalbioticinteractions.org for

examples)

Accessed at http://bids-collaborative.github.io/EDAM/ on 29 Oct 2015

acknowledgments (GloBI)

Jim Simons; Jen Hammock; Chris Mungall; Brian Hayden; Goran

Bodenschatz; Peter Roopnarine; Jeff Holmes; Cyndy Parr; Stephan

Gosnell; Sergey Slyusarev; Scott Chamberlain; Malcolm Storey; Joel

Sachs; Ken-ichi Ueda; Allen Hurlbert; Ben Raymond; Carolyn

Barnes; Jarrett Byrnes; Colt Cook; José Ferrer-Paris; Anne Thessen;

Institute for Marine Resources and Ecosystem Studies (IMARES);

International Council for Exploration of the Sea (ICES); UK Species

Inventory at the Angela Marmont Centre for UK Biodiversity, the

Natural History Museum, London; and many others.

GloBI is supported by the Encyclopedia of Life.

learn more?

Ecostation Data Access Monitor (EDAM)

https://github.com/BIDS-collaborative/EDAM/

https://gitter.im/BIDS-collaborative/EDAM

Jorrit H. Poelen, James D. Simons and Chris J. Mungall. (2014).

Global Biotic Interactions: An open infrastructure to share and

analyze species-interaction datasets. Ecological Informatics.

http://dx.doi.org/10.1016/j.ecoinf.2014.08.005

Global Biotic Interactions

http://globalbioticinteractions.org

discussion

Accessed at https://gitter.im/BIDS-collaborative/EDAM on 29 Oct 2015

discussion