IDigBio Vertebrate Digitization Workshop Two

==

Logistics

• Event hashtag: #vertdigi
• Logistics document
• Walking map: hotel to Anna Head Alumnae Hall
• Hotel information
• Train information
• Original workshop announcement
• Adobe Connect Room to join us

Agenda

Monday, April 4, 2016

Day One
Time	Topic	Presenter(s)/Leader(s)
7:00-8:00	Breakfast
8:00-8:10	Welcome, Workshop Introduction, Logistics	Michael Nachman, Director, Museum of Vertebrate Zoology Gil Nelson, iDigBio/Florida State University David Bloom, VertNet Coordinator, iDigBio/University of California, Berkeley
8:10-8:20	Brief Introduction to iDigBio	Gil Nelson
Data Issues, Plenaries
8:20-8:40	Data Standards: Darwin Core	David Bloom, Laura Russell
8:40-9:00	Audubon Core & Data Aggregation to iDigBio	Shelley James, Data Management Coordinator, iDigBio
9:00-9:20	Sampling and Preservation of Genomic Data and Linking Tissue Samples to Vouchers	Charlotte Seid, Ocean Genome Legacy Center, Northeastern University
9:20-9:40	Data Management Discussion/Q&A Discussion Notes	David Bloom and Shelley James, Moderators
9:40-10:00	Selecting What Should be Transcribed and Databased: Fully Populated vs Skeletal Records	Carla Cicero, MVZ
10:00-10:20	Digitizing and Linking Source Materials	Christina Fidler, MVZ
10:20-10:40	Break
Data Issues, Concurrent Discussion Breakouts
	Stage End of the Room	Non-stage End of the Room
10:40-11:10	Aggregators and Serving Data to the Web Dave Bloom Carol Spencer, MVZ, University of California, Berkeley	Digital Asset Management Systems and Workflows Chris Hoffman, Manager of Informatics Services, IST-Research Information Technologies, UC Berkeley
11:10-11:40	Evaluating and Selecting a Database Greg Schneider, University of Michigan	Issues in Data Preservation for Biodiversity Collections Diego Barroso and Cody Thompson, University of Michigan Laura Abraczinskas, Michigan State University
11:40-12:10	Symbiota as a Tool for Online Data Management for Vertebrate Collections http://csvcoll.org Lynda Loucks, University of Central Oklahoma Gil Nelson	Issues in Database Migration Discussion Notes Kevin Love, Shelley James, iDigBio, University of Florida Greg Schneider, University of Michigan
12:10-12:15	Q&A, Discussion, Morning Wrap-up	David Bloom
12:15-1:00	Lunch (provided)
Imaging Vertebrate Collections
1:00-1:20	Value of imaging: Herpetology	Hinrich Kaiser, Victor Valley College
1:20-1:40	Value of imaging: Ichthyology	John Sullivan, Cornell Univesity
1:40-2:00	Value of imaging: Ornithology and Mammalogy	Molly Hagemann, Bishop Museum
2:00-2:15	Discussion: What Should be Imaged and Why?	Emily Braker (moderator), University of Colorado Product: Composite Accounting of the Values and Uses of Specimen Images Notes Document: What to Image?
2:15-2:35	Break
2:35-2:55	Research and Other Uses of Images and Digitized Specimen Data	Mary Thompson, Idaho Museum of Natural History
2:55-3:15	Research and Other Uses of Images and Digitized Specimen Data	Beth Wommack, University of Wyoming Museum of Vertebrates
3:15-3:35	Safe and Efficient Preservation of Images and Other Media	Mike Webster, Cornell University
3:35-4:30	Standard Photographic Views for Herps, Ichs, Birds, and Mammals	Group discussion Notes & conclusions recorded in Google Docs Laura Abraczinskas, Michigan State University, moderator
5:00-7:00	Reception hosted by the Museum of Vertebrate Zoology (venue: MVZ Gallery)
7:00	Dinner on Your Own

Tuesday, April 5, 2016

Day Two
Time	Topic	Presenter(s)/Leader(s)
7:00-8:00	Breakfast
8:00-8:15	Lingering comments, observations, questions, discussion from day one	Gil Nelson
8:15-8:30	Audio/Video/2D Imaging Metadata and Licensing	Mike Webster, Cornell University Dave Bloom
Imaging Plenary Sessions
8:30-8:50	2D Imaging Stations: Components & Setup	John Sullivan, Cornell University
8:50-9:10	Lighting and White Balance (this & previous presentation combined)	John Sullivan
9:10-9:30	2D Image Processing Software	Andy Williston, MCZ, Harvard University
9:30-9:50	Light Box vs. Copy Stand vs. Squeeze Tank Imaging Systems	Zach Randall, Florida Museum of Natural History
9:50-10:10	Imaging Eggs and Nests	Carla Cicero
10:10-10:30	Break
10:30-10:50	Workflow Modules and Tasks	Gil Nelson
10:50-11:10	DIY: Imaging on a Budget	Mark O'Brien, University of Michigan
11:10-11:30	Cataloguing and Archiving Images: Australian National Fish Collection's Cross-polarisation Photography Process	Carlie Devine, Photographer & Image Manager ANFC, CSIRO
11:30-11:50|	A Prototype for Rapid 3D Multi-view Imaging for Photogrammetry	Nelson Rios, Tulane Unitersity
11:50-12:10	Using Mobile Devices for Collections Management	Cody Thompson, University of Michigan
12:10-12:20	Morning wrap-up/Discussion/Q&A	Cody Thompson
12:20-1:15	Lunch (provided)
Imaging Breakouts
	Stage End of the Room	Non-stage End of the Room
1:15-1:45	2D Imaging Techniques and Workflows for Fluid-preserved Specimens (Herps) Hinrich Kaiser	2D Imaging Workflows for Dry-preserved Specimens (mammals and birds) Verity Mathis, University of Florida, Florida Museum of Natural History Gil Nelson, Tall Timbers Research Station iDigBio Vertebrate Digitization Workflow Video Tall Timbers Imaging Protocols
1:45-2:15	2D Imaging Workflows for Fluid-preserved specimens (Fish) Andy Williston, MCZ, Harvard University	Mining Images for Character Traits (Software for analysis links) Mary Thompson
2:15-2:45	Anticipating Storage Requirements: Management and Archiving Greg Schneider	Imaging Microscope Slides Peter Oboyski, Essig Museum, UC Berkeley
2:45-3:15	Cameras and Lenses for 2D Imaging John Sullivan	2D Image File Types, Conversion, and Management Jon Woodward, MCZ, Harvard
3:15-3:35	Break
3:35-4:05	Strategies for Imaging Paper Labels Brandi Coyner, Sam Noble Museum, University of Oklahoma	Issues of Scale: Imaging Micro to Oversized Objects Laura Vietti, University of Wyoming
4:05-4:30	Daily Wrap-up: Discussions, Observations, Questions	Gil Nelson
6:00	Dinner on Your Own

Wednesday, April 6, 2016

Day Three
Topic	Facilitator(s)
Breakfast, 7:00-8:00
Demonstrations, 8:30-10:00
(1) Image Stacking	Mark O'Brien Gil Nelson
(2) Pre-processing and Cleaning Data	Laura Russell, VertNet/iDigBio David Bloom
(3) Microscope Slide Scanning	Peter Oboyski
(4) Data Migration from Excel (PDF)	Dusty McDonald, University of Alaska, Fairbanks
Break, 10:00-10:30
Demonstrations, 10:30-12:00
(5) Using Mobile Devices for Collections Management	Cody Thompson
(6) Imaging Paper Labels PDF of Skin Tag Capture: An Illustrated Guide Brandi Coyner, SNOMNH Mammal Collection, 05/12/2015	Brandi Coyner
(7) Using a Light Box	Verity Mathis, Gil Nelson
(8) Squeeze Tank Imaging	Zach Randall
Lunch (provided), 12:00-1:00
Collection tours, 2:00-4:30
Wrap up and group picture, 4:30-5:00 VLSB Atrium
Dinner on your own, 6:00

Workshop Recordings

Monday April 4, 2016

• Data Issues, Plenaries
• Imaging Vertebrate Collections (1pm-2:15pm)
• Imaging Vertebrate Collections (2:35pm-3:35pm)

Tuesday April 5,2016

• Imaging Plenary Sessions (8am-10:10am)
• Imaging Plenary Sessions (10:30-12:20pm)
• Issues of Scale: Imaging Micro to Oversized Objects

Workshop Planning Team

• Laura Abraczinskas, Michigan State University
• David Bloom, iDigBio/VertNet
• Emily Braker, University of Colorado
• Carla Cicero, Museum of Vertebrate Zoology
• Molly Hagemann, Bishop Museum
• Gil Nelson, iDigBio/Florida State University
• Cody Thompson, University of Michigan
• Mike Webster, Cornell Laboratory of Ornithology
• Andy Williston, Museum of Comparative Zoology