4th Annual Digital Data Conference, Indiana University

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Social Media

Twitter: #digidata, @idigbio

Conference Resources

Conference Registration

For those who would like to support the sustainability of in-person Digital Data Conferences, registration fees are $100.00 for professionals, $50.00 for students. Those who wish not to make a financial contribution to the conference may select the free option.

Registration is open - Click here to register through Eventbrite.

Final registration deadline: May 22.

Abstract Submissions

Options for submission include: discussion, oral, or poster presentations.

You must register to submit an abstract. The abstract submission link will be sent to you in your registration confirmation email.

Abstract submission deadlines: 24 April 2020

The conference will be structured to allow live presentations among different time zones. Recording of presentations are additionally being requested to be posted on the wiki to ensure their availability to any timezone.

Posters

All posters will be electronic and linked to this wiki page. There will not be a live session for posters. We are requesting that poster presenters provide a recorded description with their poster presentation.

Oral Presentations

Oral presentations should be 10 minutes long. Each oral presentation will be presented live and pre-recorded presentations will be posted on the wiki page. In the live sessions an additional 5 minutes will be given for questions.
Click here to view an example

Discussion sessions

Discussion sessions may be up to one hour long. These may begin with a presentation or introduction followed by discussion or may be completely devoted to open discussion.

Draft Agenda - Schedule Subject to Change

Monday, 1 June 2020

Day One - Block One
9:00AM - 12:00PM EDT / 1:00PM - 4:00PM UTC

Keynote Session
Location: - 9:00 - 9:30 a.m.
Time Room 1 Room 2 Room 3
9:00 Welcome - Michael McRobbie, President of Indiana University
Logistics - Gary Motz, Indiana University, Indiana Geological and Water Survey

Conference Framing - Jill Goodwin, iDigBio, University of Florida

9:30 Plenary Speaker - Lauren Sallan, Martin Meyerson Assistant Professor in Interdisciplinary Studies, University of Pennsylvania, 2019 TED Senior Fellow
10:00

Plenary Speaker - Joseph Cook, Professor & Curator, Division of Mammals, The University of New Mexico

10:30-11:00 Break - Rooms open for discussion
Concurrent Sessions 1-3 11:00 a.m. - 12:00 p.m.
Session 1 – Harnessing the Data Revolution Session 2 - Part I - The role and relevance of “Big Data” in biodiversity research Session 3 - Pipelines that integrate digitization, data use, and research
11:00 Concurrent Session 1A

Developing Data infrastructures for environmental archaeology, palaeoecology and conservation palaeobiology
Philip Buckland, Umea University; Francesca Pilotto

Concurrent Session 2A

A joint effort for the quality control of herbarium specimen data
Ashton Welcome, South African National Biodiversity Institute (SANBI);

Concurrent Session 3A

The step beyond: from scientific work environment to reliable and effective conservation genomic tools
Jutta Buschbom, Statistical Genetics

11:20 Concurrent Session 1B

Reliable data use in R
Jorrit Poelen, Ronin Institute; Carl Boettiger, UC Berkeley

Session 2 - Part II - Systematics and the use of digital specimen data

Concurrent Session 2B
Rodents from Eastern Amazon, Brazil: specimens and digital data
Alexandra M. R. Bezerra; Museu Paraense Emílio Goeldi

Concurrent Session 3B

Developing the digitization practices of parasitic arthropod specimens from a university collection
Jenna O'del, University of New Hampshire; Isaac A. Bergfalk, UNH; Holly A. Hoag, UNH; István Mikó, UNH

11:40 Concurrent Session 1C

Increasing the usefulness of crowd-sourced citizen science data to monitor and understand biodiversity
Giovanni Rapacciuolo, California Academy of Sciences; Alison Young, California Academy of Sciences; Michael Esgro, California, Ocean Protection Council; Sara Worden, California Department of Fish and Wildlife; Rebecca Johnson, California Academy of Sciences

Session 2 - Part III - Ongoing research projects that utilize digital data

Concurrent Session 2C
Florida plants and climate change: Scripts and pitfalls for utilizing digitized data in course-based undergraduate research
Michelle Gaynor, University of Florida; Douglas E. Soltis, Department of Biology and Florida Museum of Natural History, University of Florida; Pamela S. Soltis, Florida Museum of Natural History, University of Florida

Day One - Block Two
1:00PM - 4:00PM EDT / 5:00PM – 9:00PM UTC
Discussion Sessions 1&2
Theme: Gaps and deficiencies in currently available digital data that hinder effective use
Time Room 1
1:00 - 2:15 Discussion Session 1
Taxonomically intelligent biodiversity data: Taking stock of our progress and next steps to scale up implementation
Beckett Sterner, Arizona State University; Nate Upham, Arizona State University; Steffi Ickert-Bond, University of Alaska Fairbanks; Jeff Gerbracht, eBird; Atriya Sen, Arizona State University; Nico Franz, Arizona State University
2:15 – 2:45 Break - Rooms open for discussion
2:45 – 3:30 Discussion Session 2
Reliable dataset identifiers are essential building blocks for reproducible research

Jorrit Poelen, Ronin Institute; Michael Elliott, Advanced Computing and Information Systems Laboratory (ACIS) Department of Electrical and Computer Engineering, University of Florida; Jose Fortes, Advanced Computing and Information Systems Laboratory (ACIS) Department of Electrical and Computer Engineering, University of Florida, Gainesville, FL

Day One - Block Three
6:00PM - 9:00PM EDT / 10:00 PM - 1:00 AM

Evening Reception
Time Room 1 Room 2 Room 3
6:00 - 6:20 Welcome
Description of Evening
6:20 - 6:50 Irene Moon
6:50 - 7:30 Natural History Show and Tell and Happy Hour
Theme #1
Natural History Show and Tell and Happy Hour
Theme #2
Natural History Show and Tell and Happy Hour
Theme #3
7:30 - 8:00 Break - Rooms open for discussion
8:00 – 9:00 IU Virtual Collection Tour

Tuesday, 2 June 2020

Day Two - Block One
9:00AM - 12:00PM EDT / 1:00PM - 4:00PM
Discussion Session 3&4
Time Room 1
9:00 - 10:00 Discussion Session 3
Theme:Managing digital biodiversity specimen data in support of research pipelines
Research Data Support for Small Projects
Ali Krzton, Auburn University
10:00 - 10:30 Break
10:30 – 11:45 Discussion Session 4
Theme: Gaps and deficiencies in currently available digital data that hinder effective use
Digital Data: integration of infrastructure for representational data
Doug Boyer, Duke University; Julie Winchester, Duke University; David Blackburn, Florida Museum of Natural History
Day Two - Block Two
1:00PM - 4:00PM EDT / 5:00PM – 8:00PM

Time Room 1 Room 2 Room 3
1:00 - 1:30 Plenary Speaker - Katie Stanchak, Graduate Student/Postdoctoral Scholar, Department of Biology, University of Washington
1:30 - 2:00 Plenary Speaker - Michelle LeFebvre, Assistant Curator of Archaeology, Florida Museum of Natural History, University of Florida
2:00 – 2:30 Break
Concurrent Sessions 4-7
2:30 – 4:00 p.m.
Session 4 - Machine learning and artificial intelligence Session 5 - Digital biodiversity specimen data in education and outreach Session 6 - Methods and protocols for enhancing discovery with digitized specimen data
2:30 Concurrent Session 4A

Context R-CNN: Long Term Temporal Context for Object Detection in Camera Traps
Beery

Concurrent Session 5A

Creating New Data, Questions, and Scientists: A New Phenology-focused CURE using Herbarium Specimen Data
Pearson

"Concurrent Session 6A

Extracting phenology and life history data from digitized specimens
Garretson

2:50 Concurrent Session 4B

Computer vision for biodiversity database image processing
Wolcott

Discussion Session 5 (2:30 -3:30)

Developing a Course-based Undergraduate Research Experience (CURE) using digitized natural history collections data in response to the transition to online teaching
Jordan

Concurrent Session 6B

Attribute facets for specimen data search
Hammock

3:10 Concurrent Session 4C

Object Detection for Moth Sheet Identification
Earl

Discussion Session 5
Continued
Concurrent Session 6C

Establishing a pipeline for the application of machine learning to biodiversity specimen records for anomaly detection
Buckley

3:30 Discussion Session 5
Continued
Concurrent Session 6D

iDigBio’s Directory of Genetic Resources Enhances Discoverability of Materials for COVID-19 and Beyond
Cortez

Day Two - Block Three
6:00PM – 8:30PM EDT / 10:00pm – 12:30AM UTC
R and the iDigBio API Workshop

Facilitators:Erica Krimmel, iDigBio, Florida State University and Ronald Canepa, ACIS Lab, University of Florida
This workshop will focus on using the iDigBio API (Application Programming Interface) to work with biodiversity occurrence data in R. Topics will be determined unconference-style by workshop attendees, but could include those related to collections management, e.g. reviewing specimen data quality issues, and to downstream research, e.g. facilitating reproducible and reusable methods. Community members of all backgrounds (collections staff, researchers, IT, etc.) and levels of programming experience (including R novice!) are encouraged to attend this workshop as a way to discover and discuss API data access, issues, and solutions. This workshop is a product of the iDigBio API User Group (R-based).|-

Time Room 1
6:00 - 7:00 R and the iDigBio API Workshop
7:00 - 7:30 Break
7:30 – 8:30 R and the iDigBio API Workshop Continued

Wednesday, 3 June 2020

Day Three - Block One
6:00AM - 9:00AM PDT/ 9:00AM - 12:00PM EDT / 2:00PM - 5:00PM LONDON/ 9:00PM - 12:00 AM PERTH

Discussion Sessions 3&4
Time Room 1 Room 2 Room 3 Room 4
9:00 - 10:00 Discussion Session 3
10:00 - 10:30 Break - Rooms open for discussion
10:30 - 11:30 Discussion Session 4
Day Three - Block Two
10:00AM - 1:00PM PDT/ 1:00PM - 4:00PM EDT / 6:00PM - 9:00PM LONDON/ 1:00AM - 4:00AM PERTH
R and the iDigBio API Workshop

Facilitators:Erica Krimmel, iDigBio, Florida State University and Ronald Canepa, ACIS Lab, University of Florida
This workshop will focus on using the iDigBio API (Application Programming Interface) to work with biodiversity occurrence data in R. Topics will be determined unconference-style by workshop attendees, but could include those related to collections management, e.g. reviewing specimen data quality issues, and to downstream research, e.g. facilitating reproducible and reusable methods. Community members of all backgrounds (collections staff, researchers, IT, etc.) and levels of programming experience (including R novice!) are encouraged to attend this workshop as a way to discover and discuss API data access, issues, and solutions. This workshop is a product of the iDigBio API User Group (R-based).

Time Room 1 Room 2 Room 3 Room 4
1:00 - 2:30 R and the iDigBio API Workshop
2:30 -3:00 Break - Rooms open for discussion
3:00 - 4:30

R and the iDigBio API Workshop cont.

Day Three - Block Three
3:00PM - 6:00PM PDT / 6:00PM - 9:00PM EDT / 11:00PM - 2:00AM LONDON / 6:00AM - 9:00AM PERTH

Time Room 1 Room 2 Room 3 Room 4
6:00 - 6:30 Plenary Speaker - Andrew Miller, Mycologist and Director of the Herbarium/Fungarium, University of Illinois, Illinois Natural History Survey
6:30 - 7:00 Plenary Speaker - Beth Plale, Science Advisor for Public Access, National Science Foundation; Director, Data to Insight Center of Pervasive Technologies, Luddy School of Informatics, Computing, and Engineering, Indiana University
7:00 - 7:30 Break - Rooms open for discussion
Concurrent Sessions 8-10 7:30 - 8:30 p.m.
7:30
7:50
8:10

Remote Poster Session

Title Authors