Difference between revisions of "Marine Invertebrate Digitization Workshop 2019"

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:[[Media:Symbiota_2019-02-03.pdf|SYMBIOTA: specimen-based platform to support digitization, publication, and public outreach]]
:[[Media:SymbiotaWorkflows_2015-07-26.pdf|Symbiota and Specimen Label Digitization Workflows]]

Revision as of 15:14, 7 February 2019

Quick Links for DigIn: Marine Invertebrate Digitization Workshop 2018
Anisogammarus pugettensis dFHL 03419a.jpg

General Information

When: 4-5 February 2019
Where: iDigBio, Gainesville, Florida

Directions Google Map Link: https://goo.gl/maps/Q4DMRDP2MRT2 from Holiday Inn University Center to Dickinson Hall


In this 2 day workshop, collection personnel from all major and most medium-sized IZ collections in the US will share information about their collections and curatorial and digitization workflows. Participants will discuss best practices and consider ways to improve on existing methods to improve efficiency and speed of data mobilization. These will include discussing citizen-enabled data capture such as Notes from Nature, handling labels in fluid collections, imaging methods, assembling, sharing, and digitization of station data from major expeditions, etc. We will also discuss standardizing nomenclature through the World Register of Marine Species (WoRMS), linking tissue collections through Global Genome Biodiversity Network (GGBN), and DNA sequence/barcode data through Barcode of Life Data System (BOLD).


Agenda below may change as we desire or need.

Online abbreviated version
Online annotated version

Sunday 3 February 2019
Informal Collection Tours 5-630 PM, Dickinson Hall, 1659 Museum Road
Informal Dinner at Piesano's Restaurant 7 PM (restaurant located in the Holiday Inn University Center, Gainesville)

4 Feb 2019
8-8:20 Arrival Coffee – Tea – Sign-in – Log-on Demographics
8:20-8:40 Logistics
Intro to ADBC and iDigBio
Gustav and Deb Welcome, logistics, agenda

Intro to ADBC and iDigBio

8:40-9:00 Intro & overview Gustav Paulay Introduction presentation
9:00-10:30 Collection Overviews Adam Baldinger
Deborah Paul
Collection presentations
AMNH Chris Johnson, Lily Berniker
ANSP Gary Rosenberg
AUMNH Briane Varnerin
CASIZ Christina Piotrowski
CMN Jean-Marc Gagnon
FLMNH Amanda Bemis
FMNH Rudiger Bieler
FWRI Paul Larson
MCZ Adam Baldinger
NCMNS Megan McCuller
NHMLA Trina Roberts, Libby Ellwood
NMNH William Moser
RBCM Henry Choong
TAMU Mary Wicksten
VIMS Jennifer Dreyer
10:30-10:45 Coffee break
10:45-11:15 Goals part 1 Chris Johnson Goals and general discussion
11:15-12:30 Data Capture Workflows Deb Paul Data capture workflows - presentations

10 min x 6

Mandy Bemis (UF)
FLMNH IZ Digitization Workflow
Bill Moser (Smithsonian)
Digitization: Various Workflows and Challenges
Jean-Marc Gagnon (CMN)
Digitization and Data Capture at CMN
Henry Choong (RBCM) adding Specify Workbench issues

Libby Ellwood adding CitSci data capture pros and cons

12:30-1:30 Lunch (provided)
1:30-2:15 Georeferencing Nelson Rios Georeferencing overview & discussion
2:15-2:45 Symbiota Ed Gilbert Symbiota
SYMBIOTA: specimen-based platform to support digitization, publication, and public outreach
Symbiota and Specimen Label Digitization Workflows
2:45-3:15 Breakout Groups Leads Goals & workflow – breakout discussions
(self select) GROUP 1 - what taxa, areas, scientific goals
GROUP 2 - how much data to capture and how?
GROUP 3 - estimating effort & cost
3:15-3:30 Coffee break Coffee – Tea – Log on
3:30-3:45 REPORTS backs from groups Group Leads Take notes and summarize main points w/ Google docs
3:45-4:15 Imaging Zach Randall Imaging presentation & discussion
4:15-4:45 Genetics Regina Wetzer Genetic collections
5:00-6:30 Social & IZ tour
7:00 Dinner The Swamp and Map to The Swamp
1642 W University Ave, Gainesville, FL
5 Feb 2019
8-8:30 Arrival Coffee – Tea – Log on
8:30-9:00 Sequence data Adriana Radulovici

Ed Gilbert

Vouchering sequence data: BOLD, GenBank
9:00-9:15 Linking Genetic Resources Warren Brown Connecting a Genetic Resource Repository to Specify
9:15-9:45 WoRMS Bart Vanhoorne WoRMS
9:45-10:00 Nomenclature Rudiger Bieler Nomenclature discussion
10:00-10:15 Coffee break
10:15-10:45 Breakout Groups Leads Ancillary data & nomenclature breakout discussions
(self select) GROUP 1 workflows including georeferencing
GROUP 2 genetics
GROUP 3 nomenclature
Rudiger's Nomenclature discussion notes
10:45-11:15 REPORTS from groups Group Leads Take notes and summarize main points w/ Google docs
11:15-11:35 Digitization Overview
Symbiota live demo
Deb Paul
Edward Gilbert
Digitization Overview

Symbiota Sandbox

11:35-12:00 Data Mobilization Kevin Love Data Mobilization
Ed Gilbert
12:00-1:00 Lunch (provided)
1:00-1:30 Physical infrastructure Jean-Marc Gagnon

Henry Choong

Specimen storage & collection organization presentation & discussion
1:30-2:30 Dream Big: Science with IZ data Jean-Marc Gagnon Scientific goals

Dream Big: Science with IZ data

Breakout groups
google docs
What does NSF want?
Marine Resource
Dream Big: Scientific Goals
2:30-3:15 Broader Impacts Libby Ellwood
Molly Phillips
DigIn Broader Impacts
3:15-3:30 Coffee break
3:30-4:00 Management Chris Johnson
Edward Gilbert
Nelson Rios
Project and Data Management
4:00-4:30 Wrap up Gustav Paulay
4:30-4:45 Survey Everyone iDigBio exit survey for participants


  • Logistics for Workshop (pdf) In this document you will find information about:
    • hotel location: Holiday Inn University Center, Gainesville, FL
    • Workshop Location information
    • hotel-airport shuttle information
    • workshop links for uploading talks, connecting to wifi, etc

Group Notes

Taking group notes together.

Workshop Resources