IPT DarwinCore

Introduction to IPT and DarwinCore
Data Cleaning/Publishing Workshop
Empowering Biodiversity Research

Transcript

1. IPT - DARWINCORE IPT - DARWINCORE Data cleaning/publishing Workshop 9th November 2015 André Heughebaert Belgian Biodiversity Platform
2. SUMMARY SUMMARY 1. 2. 3. 4. 5. Data Publishing DarwinCore About IPT Demo References
3. DATA PUBLISHING DATA PUBLISHING
4. PRE-REQUISITES PRE-REQUISITES 1. Data owners are known & willing to publish 2. Data is available in electronic format 3. Data quality is acceptable 4. Data documentation(=metadata) 5. Data licence
5. DATA PUBLISHING DATA PUBLISHING
6. DWC DWC The Darwin Core is body of standards. It includes a glossary of terms (in other contexts these might be called properties, elements, fields, columns, attributes, or concepts) intended to facilitate the sharing of information about biological diversity by providing reference definitions, examples, and commentaries.
7. Record-level Occurrence Event Location Identification Taxon ... CATEGORIES OF TERMS CATEGORIES OF TERMS
8. OCCURRENCE TERMS OCCURRENCE TERMS Definition: The age class or life stage of the biological individual(s) at the time the Occurrence was recorded. Recommended best practice is to use a controlled vocabulary. Examples: "egg", "e ", "juvenile", "adult", "2 adults 4 juveniles". For discussion see occurrenceID catalogNumber recordedBy individualCount sex lifeStage http://terms.tdwg.org/wiki/dwc:lifeStage
9. DWC-A DWC-A Darwin Core Archive (DwC-A) is a Biodiversity informatics data standard that makes use of the Darwin Core terms to produce a single, self-contained dataset for species occurrence, checklist or sample based data.
10. INTEGRATED PUBLISHING INTEGRATED PUBLISHING TOOLKIT TOOLKIT IPT is a free, open sourced, web-based application that: Map your data to DwC Terms Describe your dataset Zip your Data+Metadata into DarwinCore Archive Publish your data on the internet Register your dataset into GBIF registry Administer users, their roles and priviledges
11. TYPES OF DATASETS TYPES OF DATASETS (Metadata only) Occurrence Checklist Sample based
12. OCCURRENCES DATA OCCURRENCES DATA
13. CHECKLIST DATA CHECKLIST DATA
14. SAMPLE BASED DATA SAMPLE BASED DATA
15. METADATA ONLY METADATA ONLY
16. DEMO DEMO 1. Create a new resource 2. Import data files 3. Map fields to DarwinCore terms 4. Describe the dataset (Metadata) 5. Publish on the net & Register to GBIF
17. HANDS-ON HANDS-ON TOOLS YOU NEED: TOOLS YOU NEED:
18. REFERENCES REFERENCES Robertson T, Döring M, Guralnick R, Bloom D, Wieczorek J, Braak K, et al. (2014) The GBIF Integrated Publishing Toolkit: Facilitating the Efficient Publishing of Biodiversity Data on the Internet. PLoS ONE 9(8): e102623. Wieczorek J, Bloom D, Guralnick R, Blum S, Döring M, Giovanni R, et al. (2012) Darwin Core: An Evolving Community-Developed Biodiversity Data Standard. PLoS ONE 7(1): e29715. doi:10.1371/journal.pone.0102623 doi:10.1371/journal.pone.0029715
19. QUESTIONS? QUESTIONS? Made with - HTML Presentations made easy Belgian Biodiversity Platform a.heughebaert@biodiversity.be reveal.js