BioAcoustica: an online repository and analysis platform for wildlife sound
-
Upload
edward-baker -
Category
Science
-
view
368 -
download
3
Transcript of BioAcoustica: an online repository and analysis platform for wildlife sound
![Page 1: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/1.jpg)
BioAcoustica: an online repository and analysis platform for wildlife sound
Ed Baker
http://dx.doi.org/10.6084/m9.figshare.1591866
![Page 2: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/2.jpg)
Where are we, and where are we going?
![Page 3: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/3.jpg)
3
Other Sound Archives: Physical Media
![Page 4: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/4.jpg)
4
Other Sound Archives: Physical Media
![Page 5: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/5.jpg)
5
Problems with Physical Media
Bulky
Must be digitised before doing modern analyses
Harder to search than digital
Hard to annotate sections of sound
![Page 6: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/6.jpg)
6
Problems with Physical Media
![Page 7: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/7.jpg)
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
![Page 8: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/8.jpg)
8
Other Sound Archvies: Digital Archives
Macaulay Library
● Thousands of recordings, available online
● Online analysis if you use the Raven browser
plugin
![Page 9: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/9.jpg)
9
Other Sound Archvies: Digital Archives
xeno-canto
● Community project / citizen science● 250,000+ plus recordings● All available online
![Page 10: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/10.jpg)
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 OrthopteraAcrididae
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)
![Page 11: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/11.jpg)
11
Other resources
Data behind many (most?) bioacoustics publications are not published.● Hard to re-use data● Hard to validate studies
![Page 12: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/12.jpg)
12
Why BioAcoustica?
Take features from other projects● Community can upload● Online analyses
Add new features● Online annotation of recordings
Utilise existing infrastructure● Scratchpads
![Page 13: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/13.jpg)
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
![Page 14: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/14.jpg)
14
Scratchpads
![Page 15: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/15.jpg)
15
Scratchpads
![Page 16: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/16.jpg)
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
![Page 17: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/17.jpg)
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
![Page 18: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/18.jpg)
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
![Page 19: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/19.jpg)
19
Developments: Link to Publications
![Page 20: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/20.jpg)
20
Making research data available
![Page 21: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/21.jpg)
21
Future plans
(Some initial thoughts after a few discussions)
![Page 22: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/22.jpg)
22
Future plans
Preserving collections:
Sharing/synchronising recordings and metadata between projects.
LOCKSS (Lots of Copies Keeps Stuff Safe)
![Page 23: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/23.jpg)
23
Future plans
Single interface for discovery (taxon neutral)
Global Biodiversity Informatics Facility?
![Page 24: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/24.jpg)
24
Future plans
A BioAcoustics workbench● Shared tool development, shared analyses● Standard datasets for testing against● Taverna/BioVeL?
![Page 25: BioAcoustica: an online repository and analysis platform for wildlife sound](https://reader031.fdocuments.in/reader031/viewer/2022030311/58f0001d1a28abd84e8b45a7/html5/thumbnails/25.jpg)
25
Thanks
BioAcoustica Team
Ben Price; Vince Smith; Simon Rycroft; Jon Hill
Taverna
Francisco Quevedo
Klaus Riede
Gregor Hagedorn