Ben Raymond - Visualising the Atlas.pdf

Transcript

1. Visualizing the Atlas Ben Raymond Australian Antarctic Division ben.raymond@aad.gov.au
2. ben.raymond@aad.gov.au What is this? some ideas on using ALA data in different ways minimal examples … not polished or complete … not necessarily even useful!
3. ben.raymond@aad.gov.au Distorting Australia
4. ben.raymond@aad.gov.au Get the data … • divide Australia into 2x1 degree grid cells • extract Plantae species list for each cell: http://biocache.ala.org.au/ws/webportal/species.csv? q=plantae&wkt=POLYGON((120:-26,122:-26,122:- 25,120:-25,120:-26)) • species-level records only • calculate dissimilarities between pairs of grid cells – (assumptions about absences!) • calculate geographic distance between each grid cell pair
5. ben.raymond@aad.gov.au
6. ben.raymond@aad.gov.au Process … • adjust the geographic positions of the grid cells so that their distances better match their dissimilarities • (like MDS, but with additional constraint of planar warping of positions)
7. ben.raymond@aad.gov.au Do the distortion … • nudge each grid point to make the geographic distances a better match to the compositional dissimilarities
8. ben.raymond@aad.gov.au The result
9. ben.raymond@aad.gov.au Migratory species
10. ben.raymond@aad.gov.au Get the data … • extracted Charadriiformes (gulls, waders, shorebirds, etc) from spatial portal – 1.1 million obs; 118 species • for each species, compared winter and summer distributions looking for indications of migration (differences in latitudinal distributions)
11. ben.raymond@aad.gov.au Shortlist Actitis hypoleucos (Common sandpiper) Charadrius (Eupoda) veredus (Oriental plover) Gelochelidon nilotica (Gull-billed tern) Onychoprion fuscata (Sooty tern) Rostratula australis (Australian painted snipe) Stiltia isabella (Australian pratincole)
12. ben.raymond@aad.gov.au Stiltia isabella
13. ben.raymond@aad.gov.au Stiltia isabella simulated migration Create seasonal MaxEnt distribution models using the spatial portal Summer Winter
14. ben.raymond@aad.gov.au Stiltia isabella simulated migration • randomly sampled 200 points from each distribution using the Maxent habitat suitability as sampling weights • constructed plausible* tracks between summer and winter point-pairs • created an animated “artist's impression” of migration using Matlab and Processing
15. ben.raymond@aad.gov.au Stiltia isabella simulated migration
16. ben.raymond@aad.gov.au Accessibility bias in survey effort
17. ben.raymond@aad.gov.au Data reflects accessibility
18. ben.raymond@aad.gov.au Proximity to road as accessibility
19. ben.raymond@aad.gov.au Proximity to road as accessibility
20. ben.raymond@aad.gov.au A bit of fun … • extract observations by "interest group" and compare distance to road – birds (Aves), beetles (Coleoptera), fish (Pisces), moths & butterflies (Lepidoptera), plants (Plantae), reptiles (Reptilia)
21. ben.raymond@aad.gov.au A bit of fun … Percentage of records within 10km of a road Pisces: 53% Coleoptera: 72% Reptilia: 72% Plantae: 75% Aves: 78% Lepidoptera: 88%
22. ben.raymond@aad.gov.au A bit of fun … Conclusions? (Recognizing that this is a small and possibly unrepresentative data set!) → Fish do not swim on roads. → Either butterflies like roads, or lepidopterists are lazy.
23. ben.raymond@aad.gov.au Actually it might be useful Observations for the brown tree frog Litoria ewingii
24. ben.raymond@aad.gov.au Actually it might be useful MaxEnt distribution models
25. ben.raymond@aad.gov.au Mapping canopy height
26. ben.raymond@aad.gov.au Data
27. ben.raymond@aad.gov.au Results
28. ben.raymond@aad.gov.au Photographic colour reconstruction
29. ben.raymond@aad.gov.au The idea … • each taxon has an information page • many have a representative photograph • can we link occurrence records with photos to reconstruct spatial variations in colour?
30. ben.raymond@aad.gov.au The data • 2° longitude by 1° latitude grid cells • extract Grevillea species list in each via web service • get each species information page via web service • if it has a photo, get it
31. ben.raymond@aad.gov.au Processing • for each photo, extract representative flower colour palette
32. ben.raymond@aad.gov.au Processing • for each photo, extract representative flower colour palette
33. ben.raymond@aad.gov.au Processing • for each photo, extract representative flower colour palette
34. ben.raymond@aad.gov.au Processing • for each photo, extract representative flower colour palette
35. ben.raymond@aad.gov.au Assemble • for each grid cell, take sample of colours in from the corresponding species – only those that have photos (obviously) – colours in proportion to species prevalence, and prevalence of colours in species palettes – only for grid cells with at least 5 species
36. ben.raymond@aad.gov.au Results
37. ben.raymond@aad.gov.au Results (automated colour extraction)
38. ben.raymond@aad.gov.au www.ala.org.au