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In praise of grumpy old men
@rdmpage
http://iphylo.blogspot.com
Chair @GBIF Science Committee
#fm10ed
Leon Croizat Tracks
=Panbiogeography
Gary Nelson & Norm Platnick
Phylogeny
+ geography
= cladistic biogeography
Ted Nelson Hyperlinks and
hypermedia
Two-way links and
“transclusion”
= Xanadu
Tim Berners-Lee
HTTP, URL, HTML
One-way lin...
Web page Other web page
Web linking, one way, document-level, “target”
doesn’t know that it is linked to (“cited”),
link c...
text
Work Source
text
Xanadu linking, two way, fragment-level,
“source” knows it is linked to, source content is
embedded,...
Xanadu
Wait, WTF has this to do
with floras?!
What is a flora?
• Draw polygon (shape) on map
• Get list of all species within that polygon
• Get original descriptions/r...
iSpecies.org
for Horsfieldia
A New Account of the Genus
Horsfieldia (Myristicaceae), Pt 2
W J J O De Wilde
The Gardens' bulletin, Singapore 38(1): 55-1...
Flora Malesiana. Series I - Seed Plants,
Volume 14. Myristicaceae
Description
Description
Flora Article
Embedding text and images
Embedding data
van Balgooy 3973
van Balgooy 3973
Description
Article Specimen
{
"key": 1139234988,
"scientificName": "Horsfieldia
lancifolia W.J.J.O. de Wilde",
"kingdom":...
Xanadu in the 21st century?
text
Article Annotations
table
annotation
annotation
@hypothes_is
Annotating a scientific paper
Aggregating annotations (iPhylo)
http://iphylo.blogspot.co.uk/2016/06/aggregating-annotations-on-scientific_30.html
Deep linking requires a
culture of being open
@okfn
www.theplantlist.org
You may not alter, transform, or
build upon this work
The Plant List 1.1
Use of Content in Derivative works is
encouraged. We do however require prior
written permission for an...
http://doi.org/10.15468/btkum2
Open versus closed data and the
challenge of creating a 21stC flora
1. Data needs to be open (e.g., scientific names
– IPN...
In praise of grumpy old men: Open versus closed data and the challenge of creating a 21st century flora
In praise of grumpy old men: Open versus closed data and the challenge of creating a 21st century flora
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In praise of grumpy old men: Open versus closed data and the challenge of creating a 21st century flora

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Talk given at Flora Malesiana 10 in Edinburgh 13 July 2016

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In praise of grumpy old men: Open versus closed data and the challenge of creating a 21st century flora

  1. 1. In praise of grumpy old men @rdmpage http://iphylo.blogspot.com Chair @GBIF Science Committee #fm10ed
  2. 2. Leon Croizat Tracks =Panbiogeography Gary Nelson & Norm Platnick Phylogeny + geography = cladistic biogeography
  3. 3. Ted Nelson Hyperlinks and hypermedia Two-way links and “transclusion” = Xanadu Tim Berners-Lee HTTP, URL, HTML One-way links = world wide web
  4. 4. Web page Other web page Web linking, one way, document-level, “target” doesn’t know that it is linked to (“cited”), link can break (404)
  5. 5. text Work Source text Xanadu linking, two way, fragment-level, “source” knows it is linked to, source content is embedded, links don’t break
  6. 6. Xanadu
  7. 7. Wait, WTF has this to do with floras?!
  8. 8. What is a flora? • Draw polygon (shape) on map • Get list of all species within that polygon • Get original descriptions/revisions for those species • Add locally relevant information • Mash together (“mashup”), and we’re done!
  9. 9. iSpecies.org for Horsfieldia
  10. 10. A New Account of the Genus Horsfieldia (Myristicaceae), Pt 2 W J J O De Wilde The Gardens' bulletin, Singapore 38(1): 55-144 (1985) http://biostor.org/reference/175018 Horsfieldia lancifolia
  11. 11. Flora Malesiana. Series I - Seed Plants, Volume 14. Myristicaceae
  12. 12. Description Description Flora Article
  13. 13. Embedding text and images
  14. 14. Embedding data
  15. 15. van Balgooy 3973 van Balgooy 3973
  16. 16. Description Article Specimen { "key": 1139234988, "scientificName": "Horsfieldia lancifolia W.J.J.O. de Wilde", "kingdom": "Plantae", "phylum": "Tracheophyta", "order": "Magnoliales", "family": "Myristicaceae", "genus": "Horsfieldia", "species": "Horsfieldia lancifolia", "genericName": "Horsfieldia", "specificEpithet": "lancifolia", "taxonRank": "SPECIES", "decimalLongitude": 121.75, "decimalLatitude": -2.25, "continent": "ASIA", "stateProvince": "Sulawesi", "year": 1979, "month": 7, "day": 11, "occurrenceID": "http://data.biodiversitydata.nl/naturalis/spe cimen/L.1769594” } Data (GBIF) Data
  17. 17. Xanadu in the 21st century?
  18. 18. text Article Annotations table annotation annotation
  19. 19. @hypothes_is
  20. 20. Annotating a scientific paper
  21. 21. Aggregating annotations (iPhylo) http://iphylo.blogspot.co.uk/2016/06/aggregating-annotations-on-scientific_30.html
  22. 22. Deep linking requires a culture of being open @okfn
  23. 23. www.theplantlist.org
  24. 24. You may not alter, transform, or build upon this work
  25. 25. The Plant List 1.1 Use of Content in Derivative works is encouraged. We do however require prior written permission for any reposting, sub- licensing, reselling, or other forms of direct redistribution of Content in their original format, unless they amount to a Derivative work. If you wish to provide a service through which Content is otherwise made available for redistribution, please contact us directly at editors@theplantlist.org.
  26. 26. http://doi.org/10.15468/btkum2
  27. 27. Open versus closed data and the challenge of creating a 21stC flora 1. Data needs to be open (e.g., scientific names – IPNI, I’m looking at you) 2. Scientific literature needs to be open access (taxonomists I’m looking at you) 3. Question: How do we make (1) and (2) happen?

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