[Taxacom] Visualizing Biodiversity

[Olivier Rovellotti]

Dear Tony, Rob

I have played with Flex and Forced Directed graphs a few years ago:

http://biodiversitydata.blogspot.com/2008/10/taxobrowser-alpha-is-online.htm
l
http://biodiversitydata.blogspot.com/2009/10/taxobrowser-beta.html
Poster from TDWG 2009: http://www.tdwg.org/proceedings/article/view/630

I haven't spent much time on it lately as it never got funding but I can
provide source code. 

Forced Directed Graphs are fun (even more so in a mutlitouch environment)
but not very practical for a day to day use. 
They are self-organizing, therefore you never know where your taxon will be
the next time you load the graph.

Cheers

Rovellotti Olivier

Natural Solutions
Mob : 00 33 (0)6 09 57 66 53
Blog : biodiversitydata.blogspot.com
Web : www.natural-solutions.eu





-----Message d'origine-----
De : taxacom-bounces at mailman.nhm.ku.edu
[mailto:taxacom-bounces at mailman.nhm.ku.edu] De la part de Roderic Page
Envoyé : mercredi 31 août 2011 09:41
À : taxacom at mailman.nhm.ku.edu
Objet : Re: [Taxacom] Visualizing Biodiversity

Dear Tony,

OK, I'll take the bait.

EOL's viewer is a treemap, for a less flashy version see
http://darwin.zoology.gla.ac.uk/~rpage/tm/ which is pretty simple to
implement. Another version I used for BioStor (since removed) is described
here :
http://iphylo.blogspot.com/2010/01/displaying-taxonomic-coverage-using.html

One limitation of standard treemaps is that you don't get to see individual
items. Quantum treemaps are a different approach which I quite like, see
Mashing up NCBI and Wikipedia using treemaps for an example.

Another approach is to display the classification as a tree. SpaceTrees are
pretty, see
http://iphylo.blogspot.com/2009/06/visualising-taxonomic-classifications.htm
l

If you want simply to display relative numbers, and provide a way to drill
down, then the treemap approach is probably the simplest. Implementation is
relatively straightforward.

Regards

Rod

On 31 Aug 2011, at 05:08, <Tony.Rees at csiro.au> <Tony.Rees at csiro.au> wrote:

> Dear Taxacomers,
> 
> In my efforts to produce a listing of all genera I end up with, among
other things, summary data on higher levels of my taxonomic hierarchy plus
the number of child taxa each contains (current example by phylum:
http://www.marine.csiro.au/mirrorsearch/ir_search.list_phylum). I realise
that this tabular approach is pretty much as unexciting as it gets so was
wondering about an improved visual manner to present this type of
information, preferably in the form  of a navigable hierarchy as per the
present hyperlinks.
> 
> One example I have come across which seems really neat is Kris Urie's EOL
Tree Viewer (aka "VOLE" - Viewer of life on EOL), for example starting point
see http://kurie.github.com/EOL-tree-viewer/#COL, however I was wondering
whether taxacomers have more suggestions or personal favourites worth
looking at. Of course I would also have to work out how to load in my data,
but that's a detail maybe.
> 
> All suggestions / examples welcome (and may even be used on my site if I
can figure out how to implement one or more of them). (Also I have a feeling
that Rod Page may have some experience in this area). Of course it would
also be nice if someone could take this on as a pet project for free,
however I would never dream of asking such a thing (for comparison / light
relief see http://www.27bslash6.com/p2p.html).
> 
> Regards - Tony
> 
> Tony Rees
> Manager, Divisional Data Centre,
> CSIRO Marine and Atmospheric Research, GPO Box 1538, Hobart, Tasmania 
> 7001, Australia
> Ph: 0362 325318 (Int: +61 362 325318)
> Fax: 0362 325000 (Int: +61 362 325000)
> e-mail: Tony.Rees at csiro.au
> Manager, OBIS Australia regional node, http://www.obis.org.au/ 
> Biodiversity informatics research activities: 
> http://www.cmar.csiro.au/datacentre/biodiversity.htm
> Personal info: 
> http://www.fishbase.org/collaborators/collaboratorsummary.cfm?id=1566
> 
> _______________________________________________
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---------------------------------------------------------
Roderic Page
Professor of Taxonomy
Institute of Biodiversity, Animal Health and Comparative Medicine College of
Medical, Veterinary and Life Sciences Graham Kerr Building University of
Glasgow Glasgow G12 8QQ, UK

Email: r.page at bio.gla.ac.uk
Tel: +44 141 330 4778
Fax: +44 141 330 2792
AIM: rodpage1962 at aim.com
Facebook: http://www.facebook.com/profile.php?id=1112517192
Twitter: http://twitter.com/rdmpage
Blog: http://iphylo.blogspot.com
Home page: http://taxonomy.zoology.gla.ac.uk/rod/rod.html

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