Digitizing Fluid-preserved Vertebrate Specimens

Logistics

• Hotel information
• Train information
• Original workshop announcement

=Agenda
Tuesday, March 15, 2016

Day One
Time	Topic	Presenter(s)/Leader(s)
6:30 - 7:30 a.m.	Breakfast at Hotel Complimentary breakfast 6:30 - 9:30 a.m.
8:00-8:15 a.m.	Welcome and Workshop Introduction and Logistics	Gil Nelson, iDigBio/Florida State University Chris Phillips, Illinois Natural History Survey
8:15-8:45 a.m.	Introduction to ADBC, iDigBio, and TCN Development	Larry Page, iDigBio/Florida Museum of Natural History
8:45-9:15 a.m.	Why this Workshop? Workshop Goals, Discussion, agenda additions	Larry Page Gil Nelson
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	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 Breakouts
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	Core Data to Preserve 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 Lynda Loucks, University of Central Oklahoma Gil Nelson	Issues in Database Migration Kevin Love, Shelley James, iDigBio, University of Florida Greg Schneider, University of Michigan
12:10-12:20	Q&A, Discussion, Morning Wrap-up	David Bloom
12:20-1:15	Lunch (provided)
Imaging Vertebrate Collections
1:15-1:35	Value of imaging: Herpetology	Hinrich Kaiser, Victor Valley College
1:35-1:55	Value of imaging: Ichthyology	John Sullivan, Cornell Univesity
1:55-2:15	Value of imaging: Ornithology and Mammalogy	Molly Hagemann, Bishop Museum
2:15-2:35	Discussion: What Should be Imaged and Why?	Emily Baker (moderator), University of Colorado Product: Composite Accounting of the Values and Uses of Specimen Images
2:35-3:00	Break
3:00-3:20	Research and Other Uses of Images and Digitized Specimen Data	Mary Thompson, Idaho Museum of Natural History
3:20-3:40	Research and Other Uses of Images and Digitized Specimen Data	Beth Wommack, University of Wyoming Museum of Vertebrates
3:40-4:00	Safe and Efficient Preservation of Images and Other Media	Mike Webster, Cornell University
4:00-4:30	Standard Photographic Views for Herps, Ichs, Birds, and Mammals	Discussion group breakouts Notes & conclusions recorded in Google Docs
4:30-5:00	Discussion Group Reports	Laura Abraczinskas, Michigan State University, moderator
6:00	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	Mike Webster, Cornell University
Imaging Plenary Sessions
8:30-8:50	2D Imaging Stations: Components & Setup	John Sullivan, Cornell University
8:50-9:10	Lighting and White Balance	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
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	Imaging Eggs and Nests	???Anand Varma, MVZ
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
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
1:45-2:15	2D Imaging Workflows for Fluid-preserved specimens (Fish) Andy Williston, MCZ, Harvard University	Mining Images for Character Traits 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) Using Mobile Devices for Collections Management	Cody Thompson
(2) Image Stacking
*(3) Pre-processing and Cleaning Data	Laura Russell, VertNet/iDigBio Carla Cicero
(4) Microscope Slide Scanning	Peter Oboyski
(5) Data Migration from Excel	Dusty McDonald, University of Alaska, Fairbanks
Break, 10:00-10:30
Demonstrations, 10:30-12:00
(6) Imaging Paper Labels	Brandi Coyner
(7) Using a Light Box	Verity Mathis, Gil Nelson
(8) Squeeze Tank Imaging	Zack Randall
(9) Imaging Eggs and Nests	???Anand Varma, MVZ, UC Berkeley
Lunch (provided), 12:00-1:00
Collection tours, 1:00-5:00
Dinner on your own, 6:00