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Freeland, II LAPI, 18 NOV 2008 Digital Libraries for Science: Botanicus & Biodiversity Heritage Library Chris Freeland Director of Bioinformatics, Missouri Botanical Garden Technical Director, BHL
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Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Nov 27, 2014

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Page 1: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Digital Libraries for Science: Botanicus & Biodiversity Heritage Library

Chris Freeland

Director of Bioinformatics, Missouri Botanical Garden

Technical Director, BHL

Page 2: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Why scan old books?

The cited half-life of publications in taxonomy is longer than in any other scientific discipline

* * * The decay rate is longer than in any scientific discipline

- Macro-economic case for open access, Tom Moritz

Page 3: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Botanicus.org

Page 4: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Workflow

Selection Preparation

Post Production(Re)publication

Digitization

Conservation

Page 5: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Selection process

Botanische Jahrbucher fur Systematik… 15,052

Revisio Generum Plantarum 13,548

Linnaea 12,695

Prodromus Systematis Naturalis Regni Vegetabilis 11,757

Flora Brasiliensis 9,833

Journal of the Linnean Society, Botany 7,599

Repertorium Specierum Novarum Regni Vegetabilis 7,578

Bulletin of the Torrey Botanical Club 5,853

Species Plantarum 5,736

Das Pflanzenreich 5,455

… …

Title Protologues

Page 6: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Digitization process

6 Full time scanning technicians

3 Indus 5002 book scanners

1 Kodak i280 Sheet feed scanner

Page 7: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Demonstration:

Connecting a name with its protologue

Page 8: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

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Freeland, II LAPI, 18 NOV 2008

Citation resolver

Vol.Title Part Page Year

Page 10: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Page 11: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

How we make the connections

• From Tropicos:– Store structured citation info, not free text

• Volume: 2• Issue: 4• Start Page: 358 • *NOT*: 2(4): 358

– Maintain authority files for bibliographic materials, including Botanicus TitleIDs

• From Botanicus:– Detailed info for every page– Knowledge of other identifiers for book– Flexibility to accommodate multiple cataloging

Page 12: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Botanicus Progress To Date:

2,400 volumes1 million pages…growing daily…

Freely availableat

www.botanicus.org

Page 13: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Biodiversity Heritage Library (BHL)

http://www.biodiversitylibrary.org

Page 14: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

BHL Institutions

Museums– American Museum

of Natural History (New York)

– Natural History Museum (London)

– Smithsonian Institution (Washington)

– The Field Museum (Chicago)

Botanical Gardens– Missouri Botanical Garden– New York Botanical Garden– Royal Botanic Garden, Kew

Bioinformatics Institutes – MBL/WHOI– uBio.org

University Libraries– Botany Libraries, Harvard

University– Ernst Meyer Library of the

Museum of Comparative Zoology, Harvard University

– University of Illinois

Page 15: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Scanning Operations

BHL uses scanning centers established by Internet Archive for mass scanning.

Some partner libraries also scan in-house.

Want to expand international footprint:

•mirrored content•ingest from global data providers

Locations of BHL/IA Scanning Centers

Page 16: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

BHL Progress To Date:

Nearing:24,000 volumes10 million pages…growing daily…

Freely availableat

www.biodiversitylibrary.org

Page 17: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Open Access Literature

Flora de la Provincia de Buenos Aires. Publisher: Buenos Aires :M. Biedma è Hijo,1905.

PDF

OCR

XML

JP2

Page 18: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Name Finding via TaxonFinder

Page 19: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Raw Image Converted to text via OCRName finding via TaxonFinder Extract namesSubmit to NameBankSOAP response

Name Finding in action

with Taxonomic Intelligence…

Page 20: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

BHL Name Finding Stats to date*

• Have mined more than 30 million name string occurrences – 4.4 million unique

• More than 23.7 million name strings verified by NameBank– 1.2 million unique

*17 November 2008

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Freeland, II LAPI, 18 NOV 2008

BHL & JSTOR

• Complementary efforts– Preservation & distribution of scholarly content

• Yet distinct– BHL has thousands of monographs– Rare materials– Content selected specifically for taxonomists &

parataxonomists– All BHL content is open access– For now, BHL is focused on legacy content;

JSTOR on contemporary

Page 24: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

How can BHL enrich LAPI?

Links to:• Protologues

• All occurrences of a name

• Historic texts

• Illustrations & maps

Page 25: Digital Libraries for Science: Botanicus and the Biodiversity Heritage Library

Freeland, II LAPI, 18 NOV 2008

Contact

Chris Freeland4344 Shaw Blvd.St. Louis, MO [email protected]

http://www.botanicus.orghttp://www.biodiversitylibrary.org