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BioAcoustica: an online repository and analysis platform for wildlife sound


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What is BioAcoustica? Why did we develop it? Where is it going?

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BioAcoustica: an online repository and analysis platform for wildlife sound

  1. 1. BioAcoustica: an online repository and analysis platform for wildlife sound Ed Baker
  2. 2. Where are we, and where are we going?
  3. 3. 3 Other Sound Archives: Physical Media
  4. 4. 4 Other Sound Archives: Physical Media
  5. 5. 5 Problems with Physical Media Bulky Must be digitised before doing modern analyses Harder to search than digital Hard to annotate sections of sound
  6. 6. 6 Problems with Physical Media
  7. 7. 7 Other Sound Archvies: Digital Archives British Library Sound Archive Tierstimmenarchiv, Berlin ● Many thousands of recordings. Can search online then visit/request recordings ● Small number of recordings online
  8. 8. 8 Other Sound Archvies: Digital Archives Macaulay Library ● Thousands of recordings, available online ● Online analysis if you use the Raven browser plugin
  9. 9. 9 Other Sound Archvies: Digital Archives xeno-canto ● Community project / citizen science ● 250,000+ plus recordings ● All available online
  10. 10. 10 Other Digital Resources (Orthoptera) Archive Orthoptera recordings Taxa Taxonomic focus Geographic focus Macaulay 9282 262 Ensifera North America DORSA-SYSTAX 9176 550 Orthoptera Europe (Ecuador, South East Asia) Tierstimmenarchiv 1093 66 Orthoptera Acrididae Europe SINA n.a. (440) Ensifera North America Orthoptera Species File n.a. 776 Orthoptera World-wide GBIF 3973 XX XX World-wide Reide, K (Article In Prep)
  11. 11. 11 Other resources Data behind many (most?) bioacoustics publications are not published. ● Hard to re-use data ● Hard to validate studies
  12. 12. 12 Why BioAcoustica? Take features from other projects ● Community can upload ● Online analyses Add new features ● Online annotation of recordings Utilise existing infrastructure ● Scratchpads
  13. 13. 13 Scratchpads EU funded Virtual Research Environment (EDIT; ViBRANT) ● Handles taxonomy, specimens, references, media files, taxon descriptions ● Contributes data to GBIF; Encyclopedia of Life ● Integration with Taverna/BioVeL for analysis using grid computing
  14. 14. 14 Scratchpads
  15. 15. 15 Scratchpads
  16. 16. 16 Developments: Annotations Annotation ● Describing what a recording contains ● Which part is the spoken introduction? ● Are there regions with excessive background noise? ● What parts can I use for analysis? ● Deal with multiple species per recording
  17. 17. 17 Developments: BioVeL Biodiversity Virtual e-Laboratory ● Runs workflows on a grid computing infrastructure BioAcoustica ● Comes with a set of general acoustic analyses combined into a BioVeL workflow
  18. 18. 18 Developments: Analyse by default Every time an annotation is made on a recording indicating there is a clear call, that section of audio is analysed
  19. 19. 19 Developments: Link to Publications
  20. 20. 20 Making research data available
  21. 21. 21 Future plans (Some initial thoughts after a few discussions)
  22. 22. 22 Future plans Preserving collections: Sharing/synchronising recordings and metadata between projects. LOCKSS (Lots of Copies Keeps Stuff Safe)
  23. 23. 23 Future plans Single interface for discovery (taxon neutral) Global Biodiversity Informatics Facility?
  24. 24. 24 Future plans A BioAcoustics workbench ● Shared tool development, shared analyses ● Standard datasets for testing against ● Taverna/BioVeL?
  25. 25. 25 Thanks BioAcoustica Team Ben Price; Vince Smith; Simon Rycroft; Jon Hill Taverna Francisco Quevedo Klaus Riede Gregor Hagedorn