Tuesday, September 20, 2011

Orwellian metadata: making journals disappear

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I've been spending a lot of time recently mapping bibliographic citations for taxonomic names to digital identifiers (such as DOIs). Thi...
Thursday, September 15, 2011

Anchoring Biodiversity Information: from Sherborn to the 21st century and beyond

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Charles Davies Sherborn, the Natural History Museum's 'magpie with a card-index mind’ Next month I'll be speaking in London at T...
Wednesday, September 14, 2011

I think I now "get" the Encylopedia of Life

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The Encylopedia of Life (EOL) has been relaunched, with a new look and much social media funkiness. I've been something of an EOL scept...
Tuesday, September 13, 2011

Phantom articles: why Mendeley needs to make duplication transparent

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Browsing Mendeley I found the following record: http://www.mendeley.com/research/description-larva/ . This URL is for a paper Costa, J. M., ...

Rethinking citation matching

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Some quick half-baked thoughts on citation matching. One of the things I'd really like to add to BioStor is the ability to parse articl...

More BHL app ideas

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Following on from my previous post on BHL apps and a Twitter discussion in which I appealed for a "sexier" interface for BHL (to ...
Monday, September 12, 2011

Duplicate DOIs for the same article: alias DOIs, who knew?

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As part of a project to map taxonomic citations to bibliographic identifiers I'm tackling strings like this (from the ION record urn:lsi...
Wednesday, September 07, 2011

Suggested apps for BHL's Life and Literature Code Challenge

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Since I won't be able to be at the Biodiversity Heritage Library's Life and Literature meeting I thought I'd share some ideas f...
Sunday, August 28, 2011

Tree of Life 0.1 - annotating the NCBI taxonomy

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Last week I was at the NSF "Assembling, Visualising and Analysing the Tree of Life" Ideas Lab, run by KnowInnovation.com/ . It was...
Friday, August 26, 2011

I am not a number...I am an "ideator"

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As part of the NSF "Assembling, Visualising and Analysing the Tree of Life" Ideas Lab that I took part in earlier this week I had ...
Wednesday, July 13, 2011

Correcting OCR using hOCR in Firefox

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Quick post on a little tool I came across, moz-hocr-edit . This Firefox add-on lets you proofread Optical Character Recognition (OCR) output...
Tuesday, July 12, 2011

Talk @vizbi on phylogeny visualisation

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The talks from the 2001 workshop on Visualizing Biological Data ( VizBi 2011 ) are now available on Vimeo . There were some great talks at V...
Saturday, June 11, 2011

Mendeley Hack4Knowledge: towards an "ego wall"

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I'm taking a virtual part in Mendeley's Hack4Knowledge event. I'm using this a chance to explore some ideas about building nove...
Wednesday, June 08, 2011

Adding Solr to BioStor: searching for real

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Prompted by the appearance on the BHL blog of an article about BioStor I've thinking about how to improve what is basically a fairly cl...

I wrote that: asserting authorship using the Mendeley API

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Inspired by the forthcoming Hack4Knowledge I've put together a service that enables you to assert that you are the author of a paper us...
Thursday, June 02, 2011

Would you give me a grant? An experiment in Open Science

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I would like to know what you think of a grant proposal I plan to submit to the UK Natural Environment Research Council at the end of the m...
Thursday, May 26, 2011

ZooBank on CouchDB: UUIDs, replication, and embedding the literature in taxonomic databases

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Last December I released a web site called Australian Faunal Directory on CouchDB , which was part of my ongoing exploration of how to build...

What is the best way to measure academic outputs that aren't publications?

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My institute is going through various reviews of staff performance and, frankly, I'm feeling somewhat vulnerable given my somewhat unort...
Wednesday, May 25, 2011

The top-ten new species described in 2010 and the failure of taxonomy to embrace Open Access publication

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Each year the grandly titled International Institute for Species Exploration (IISE) publishes list of the top 10 species described in the p...
Monday, May 23, 2011

BioStor article published (finally)

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My article describing BioStor — "Extracting scientific articles from a large digital archive: BioStor and the Biodiversity Heritage Li...