Messaggi di Rogue Scholar

language
Pubblicato in iPhylo

Yet another taxonomic database, this time I can't blame anyone else because I'm the one building it (with some help, as I'll explain below). BioNames was my entry in EOL's Computable Data Challenge (you can see the proposal here: http://dx.doi.org/10.6084/m9.figshare.92091). In that proposal I outlined my goal: The bulk of the funding from EOL is going into interface work by Ryan Schenk (@ryanschenk), author of synynyms among other cool

Pubblicato in iPhylo

In any discussion of data gathering or data cleaning the term "crowdsourcing" inevitably comes up. A example where this approach has been successful is the Encyclopedia of Life's Flickr pool, where Flickr users upload images that are harvested by EOL.

Pubblicato in iPhylo

As part of a project to build a tool to navigate through taxonomic names and classifications I've become interested in quick ways to compare classifications. For example, EOL has multiple classifications for the same taxon, and I'd like to quickly discover what the similarities and differences are.

Pubblicato in iPhylo

One visualisation method I keep coming back too is the treemap. Each time I experiment with them I learn a little bit more, but I usually end up abandoning them (with the exception of using quantum treemaps to display bibliographic data). But they keep calling me back.

Pubblicato in iPhylo

There's a recent thread on the Encyclopedia of Life concerning erroneous images for the crab Leptograpsus . This is a crab I used to chase around rooks on stormy west-coast beaches near Auckland, so I was a little surprised to see the EOL page for Leptograpsus looks like this: The name and classification is the crab, but the image is of a fish ( Lethrinus variegatus ). Perhaps at some point in aggregating the images

Pubblicato in iPhylo

In the spirit of the Would you give me a grant experiment? [1] here's the draft of a proposal I'm working on for the Computable Data Challenge. It's an attempt to merge taxonomic names, the primary literature, and phylogenetics into one all-singing, all-dancing website that makes it easy to browse names, see the publications relevant to those names, and see what, if anything, we know about the phylogeny of those taxa.

Pubblicato in iPhylo

The Encyclopedia of Life have announced the EOL Phylogenetic Tree Challenge. The contest has two purposes: First prize is a trip to iEvoBio 2012, this year in Ottawa, Canada. For more details visit the challenge website. There is also an EOL community devoted to this challenge. Challenges are great things, especially ones with worthwhile tasks and decent prizes. EOL badly needs a phylogenetic perspective, so this is a welcome development.

Pubblicato in iPhylo

As part of a course on "phyloinformatics" that I'm about to teach I've been making some visualisations of classifications. Here's one I've put together using jQuery Mobile and the Encyclopedia of Life API. It's pretty limited, but is a simple way to explore EOL using three different classifications.

Pubblicato in iPhylo

Browsing EOL I stumbled upon the recently described fish Protoanguilla palau , shown below in an image by rairaiken2011: Two things struck me, the first is that the EOL page for this fish gives absolutely no clue as to where you would to find out more about this fish (apart from an unclickable link to the Wikipedia page http://en.wikipedia.org/wiki/Protoanguilla - seriously, a link that isn't clickable?), despite the fact this fish