Files

The files in the Workflow Materials folder can be thought of a set of research objects that form a linear workflow (an over-simplification) of the process from original grant to a new hypothesis (contained in the READ ME file) to the application of software to generate data. These data were analyzed results presented and published and a press release generated from the work.

The challenge - what can you do to illustrate to us at the workshop that you have tools or ideas to make this process more efficient and the end product (paper, presentation etc.) more comprehensible to a broad audience. 

I suggest you start with the readme file and then look at the introduction on the website associated with the study. Contact me with any questions.

Phil Bourne pbourne@ucsd.edu
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Original workshop proposal written by Phil Bourne, May 2010  95k v. 4 Oct 29, 2010, 7:30 AM Anita de Waard
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Raw notes from first breakout session on reading and writing, 2011-01-20 from Jodi Schneider.  733k v. 3 Jan 28, 2011, 10:11 AM Jodi Schneider
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Gully Burns description of KEfED models of the drugome  5939k v. 4 Jan 24, 2011, 8:08 PM Gully Burns
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Introductory Presentations  5576k v. 2 Jan 18, 2011, 10:12 PM Philip Bourne
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Latest version  4125k v. 2 Jan 19, 2011, 7:30 AM Gully Burns
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Comparing three annotation systems for identifying arguments in scientific text  1552k v. 2 Jan 20, 2011, 5:38 AM Anita de Waard
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Gully Burns: using the KEfED editor to design a simple experiment.  7067k v. 2 Jan 20, 2011, 1:47 PM Gully Burns
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GullyBurns: entering data into a KEfED model  469k v. 2 Jan 20, 2011, 1:47 PM Gully Burns
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Anita de Waard - Talk on hedging in Bourne corpus  893k v. 2 Jan 20, 2011, 5:37 AM Anita de Waard
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David Argue - Beyond the Dead Sea PDFs - A Next-Generation Paper Format  6339k v. 2 Jan 24, 2011, 7:04 AM Dave Argue
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David Shotton's presentation -Shotton&Peroni_Semantic_Annotation_Using_SPAR_Ontologies  3540k v. 2 Jan 28, 2011, 10:36 AM Jodi Schneider
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Solvitor presentation on Annotum scholarly publishing system for Beyond The PDF - 20-Jan  3462k v. 2 Jan 19, 2011, 11:23 PM Carl Leubsdorf, Jr.
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Supporting Reading - Jodi Schneider (slides in PDF)  1966k v. 2 Jan 28, 2011, 10:11 AM Jodi Schneider
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Total Impact presentation  2617k v. 2 Jan 19, 2011, 9:45 AM Paul Groth
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Link to data associated with the study (148MB compressed).  26k v. 3 Oct 28, 2010, 9:26 AM Philip Bourne
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HTML version of an early draft of the paper  1304k v. 2 Nov 24, 2010, 9:58 PM Philip Bourne
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Word, Excel files of an early draft of the paper.  1703k v. 2 Nov 13, 2010, 11:53 AM Philip Bourne
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Paper to be published by PLoS Comp. Biol.  4417k v. 2 Oct 28, 2010, 7:52 AM Philip Bourne
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Press release associated with the paper.  29k v. 2 Oct 28, 2010, 9:15 AM Philip Bourne
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Brief description of what is in the other files.  26k v. 2 Oct 28, 2010, 7:47 AM Philip Bourne
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Original grant that funded the work.  4040k v. 2 Oct 23, 2010, 4:12 PM Philip Bourne
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Link to the software used to generate the data.  26k v. 2 Oct 28, 2010, 9:08 AM Philip Bourne
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Spreadsheet of data generated by the study.  625k v. 2 Oct 28, 2010, 9:25 AM Philip Bourne
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Presentation of the research work.  6979k v. 2 Oct 28, 2010, 7:44 AM Philip Bourne
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Intermediate versions of the paper after author, editor and copyeditor revisions.  9229k v. 2 Nov 6, 2010, 12:42 PM Philip Bourne
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