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Image management for effective

collaboration using presently existing Web tools in Morphbank

------------------------------

www.morphbank.net

SELTMANN2, Katja; PRIETO-MARQUEZ1,*, Albert; RONQUIST2, Fredrik; RICCARDI3, Gregory A.; DEANS5, Andy; JAMMIGUMPULA2, Neelima; MAST1, Austin; WINNER2, Steve; MANEVA-JAKIMOSKA2, Karolina; PAUL2, Debbie; CPREK2, Christopher; BLANCO2, Wilfredo; GAITROS4, David; ERICKSON1, Gregory M.; and GAITROS2, Cynthia

1Department of Biological Science, Florida State University, Tallahassee, FL 32306-1100, USA. 2School of Computational Science, Florida State University, Tallahassee, FL 32306-4120, USA. 3College of Information, Florida State University, Tallahassee, FL 32306-4530, USA. 4Department of Computer Science, Florida State University, Tallahassee, FL 32306-4530, USA. 4Department of Entomology, North Carolina State University, Raleigh, NC 27607, USA.

Morphbank Team, Department of Computational Sciences, Florida State University


Morphbank team

Wilfredo Blanco, programmer/search and browse

Christopher Cprek, system administrator

Andrew Deans, biologist/Hymenoptera ontology project

Robert van Engelen, principal investigator /Department of Computer Science

Greg Erickson, principal investigator /paleontologist/paleohistological project

Cynthia Gaitros, technical writer

David Gaitros, programmer/annotations software/project coordinator

Neelima Jammigumpula, programmer/data base development/project coordinator

Peter Jörgensen, principal investigator /School of Computational Sciences

Corinne Jörgensen, principal investigator /School of Computational Sciences

Karolina Maneva-Jakimoska, programmer/Java development

Albert Prieto-Marquez, paleontologist/paleohistological project

Austin Mast, principal investigator /biologist/ herbarium curator/annotations software

Debbie Paul, curator/user manual and user trials

Fredrik Ronquist, principal investigator/biologist/project initiator

Greg Riccardi, principal investigator/ data base development /lead project coordinator

Katja Seltmann, curator/external links/annotation software

Steve Winner, programmer/Web development and GUI/collections software

Morphbank Team


What is Morphbank

  • Morphbank is an open web repository of biological images serving the research community. Any research biologist may use the morphbank tools

  • First developed in 1998 by a Swedish-American-Spanish consortium as an ftp site

  • Now centered at the School of Computation Sciences (SCS), Florida State University

  • March 2005 - Morphbank team awarded 3-year NSF grant (BDI 0446224) to develop the software



Browse and search based on objects in Morphbank

Published vs. unpublished data

Group access/security

Reviewer Accounts

Access requires only a Web browser

Edit/upload from the Web & Excel upload

Darwin Core standard for data definitions

MorphbankID (mbID) but searchable by the origional file name for that image.

Online users manual and FAQ

Curators and a help desk and can arrange for a project workshop

User branding

Backup-second server + tape backup

Morphbank 2.5.5

View

Specimen

Annotation

Image

Publication

Collection

Locality


External links

http://morphbank.net/Show/?id=80305


Create Annotation (xml, determination, legacy and general) and Collections

Mirror images using ftp account

Maintain publication information

Web linking

Use images in your own Web page using morphbank ID

Link to any morphbank object (collection, annotation, image, specimen) using the morphbank ID.

Work with the Integrated Taxonomic Information System (ITIS). Use as the taxonomic name

service plus the ability to add names to Morphbank not presently in ITIS

Annotate names already in ITIS

collaboration with ITIS to submit names directly to their system from morphbank.

Morphbank 2.5.5


Collections and Collections: show, share, annotate, view and publish


Image hosting/linking and Collections

http://www.hymatol.org/Chalcidkey/

E. Grissell, M. E. Schauff & Mike Gates


Image hosting/linking and Collections

http://www.hymatol.org/Chalcidkey/

E. Grissell, M. E. Schauff & Mike Gates




Create tools to manage your objects publications

These tools make it easier to limit records displayed

by user or group, and make changes to multiple records.

Make upload and data management easier

Web services

Use ontologies and structured language

Tagging, simple form of annotations

Modification of the collection tool for creating Character/Character States

Build matrices for phylogenetics and key creation (see poster session)

Specific interface design for histological studies (see poster session)

Future Directions



Morphbank 2.7 - Character State Annotations publications

Import and export Nexus files



Morphbank 3.0 - Web services and Ontologies publications

http://www.specifysoftware.org/Specify

http://sourceforge.net/projects/mx-database

http://www.treebase.org/

http://www.gbif.org/

http://www.tolkin.org/

http://mesquiteproject.org


Acknowledgments publications

• National Science Foundation

- Biological Databases and Informatics (BDI) Program

(Grant DBI-0446224) for Morphbank

• Florida State University:

- School of Computational Science

- College of Information

- Department of Computer Science

- Department of Biological Science

- Department of Mathematics

• National Evolutionary Synthesis Center (NESCent)

• Swedish Research Council

• Uppsala University, Sweden

• Morphbank biologists and collaborators


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