Thursday, March 20, 2008

Phylowidget

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Greg Jordan and Bill Piel have released PhyloWidget , a Java applet for viewing phylogenetic trees. It's very slick, with some nice vis...
1 comment:

Systematics as Cyberscience

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Vince Smith alerted me to "Systematics as Cyberscience", by Christine Hine, whose work I've mentioned earlier . Looks like an...
Monday, March 10, 2008

Google's Social Graph API

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Google's Social Graph API was released earlier this year. The motivation: With so many websites to join, users must decide where to inv...
1 comment:
Sunday, March 09, 2008

CrossRef adds more information to OpenURL resolver

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Tom Pasley recently drew my attention to CrossRef's addition of a XML format parameter to their OpenURL resolver. Adding &format=xm...
Thursday, March 06, 2008

PageRank for biodiversity

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This will probably tempt fate, but I've an invited manuscript in review for Briefings in Bioinformatics on the topic of identifiers in ...
1 comment:

Word for the day - "transclusion"

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Stumbled across Project Xanadu , Ted Nelson's vision of the way the web should be (e.g., BACK TO THE FUTURE: Hypertext the Way It Used T...
2 comments:
Tuesday, February 26, 2008

Encyclopedia of Life - first impressions

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Some thoughts on the first release of the Encyclopedia of Life . I am being deliberately critical. This is a high profile project with tens ...
11 comments:

EOL live

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The first release of the Encyclopedia of Life is officially live today. I have promised to be very good...
1 comment:
Monday, February 18, 2008

LSID Tester, a tool for testing Life Science Identifier resolution services

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My short note on the LSID Tester tool has been published in the Open Access journal Source Code for Biology and Medicine . The article has ...

TBMap errors

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In the absence of a proper bug reporting system, I'm going to use this post to collect errors in the TBMap project , which maps taxonomi...
1 comment:
Sunday, February 17, 2008

CrossRef blogger tool for DOI lookup

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CrossRef have released a tool for bloggers to look up DOIs and insert them into blog posts: The plug-in, which is available for download at...
3 comments:
Tuesday, February 05, 2008

The Data Wars

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Wired 16.01 has an article entitled The Data Wars by Josh McHugh . A quote from the printed version: They call it scraping — when web compa...
3 comments:
Monday, February 04, 2008

How to visualize a phylogeny with thousands of tips?

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Dave Lunt has a nice post on How to visualize a phylogeny with thousands of tips? . Dave lists 12 things that his ideal phylogenetic tree vi...

Incomplete citation and ranking

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Came across the paper "Using incomplete citation data for MEDLINE results ranking" ( pmid:16779053 , fulltext available in PMC .Th...

A database of everything

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Nothing like a little hubris first thing Monday morning... After various experiments, such as a triple store for ants (documented on the Sem...
6 comments:
Thursday, January 31, 2008

How Shall I Integrate Thee? Let Me Count the Ways...

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Leigh Dodds has a nice post How Shall I Integrate Thee? Let Me Count the Ways... about different ways to integrate data. The one where we s...
Tuesday, January 29, 2008

Metacrap

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Time for a rant. I spend a lot of time fussing with records from sources such as GenBank and DiGIR providers, trying to extract strings that...
1 comment:
Saturday, January 26, 2008

EDIT meeting

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Spent the week in Portugal at the EDIT Future Trends of Taxonomy meeting, held at the View from cave, at the beach in front of the Hotel Ti...
Wednesday, November 28, 2007

Transitive reduction

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Quick note to self, having stumbled on the Wikipedia page on transitive reduction . Given a graph like this: the transitive reduction is: No...
Tuesday, November 20, 2007

Interview

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Paulo Nuin recently interviewed me for his Blind.Scientist blog. The interview is part of his SciView series.