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2017 ePANDDA Hackathon: Difference between revisions

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2017 ePANDDA Hackathon (view source)

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===Tuesday, 6 June 2017===
===Agenda: Tuesday, September 19, 2017===
Wireless link: http://its.umich.edu/enterprise/wifi-networks/wifi
Twitter: #ePANDDA
 
{| class="wikitable" style="background-color:#FFF8DC;"
{| class="wikitable" style="background-color:#FFF8DC;"
!colspan="5" style=background-color:#FFEBCD;|  Day Two
|-
|-
|colspan="5" style="vertical-align:top; text-align: center; background-color:#FFEBCD;"|'''Breakfast (On your own) 7:00 - 8:00 a.m.'''
|-
|-
|colspan="5" style="text-align: center; background-color:#eed1a9;"| '''Light Breakfast & Coffee outside BEES classroom 3rd floor (8:15)'''
|-
|-
|colspan="5" style="vertical-align:top; text-align: center; background-color:#FFEBCD;"|'''Registration 7:00 - 8:00 a.m.'''
|-
|-
! colspan="1" style="background-color:#FFEBCD; text-align:center;" |     Time 
! colspan="2" style="background-color:#FFEBCD; text-align:center;" | Title
! colspan="2" style="background-color:#FFEBCD; text-align:center;" | Presenter(s)
|-
|-
|colspan="5" style="text-align:center; vertical-align:top; background-color:#eed1a9;"|<b>'''Plenary Session - The League Ballroom (8:00 - 10:15 a.m.)<br>[http://idigbio.adobeconnect.com/pbkhy6j7a7kk/ Session Recording]<br>Moderator: Katelin D. Pearson'''
|-
|-
| colspan="1" style="vertical-align:top; text-align: left;"|9:00-9:15
| colspan="2" style="vertical-align:top; background-color:#FFF8DC;"| Q+A session about Day 1 progress
| colspan="2" | Jocelyn Sessa
|-
|-
! style="background-color:#eed1a9;" | Time
! style="background-color:#eed1a9;" | Title
! colspan="3" style="background-color:#eed1a9;" | Presenter(s)
|-
|-
| colspan="1" style="vertical-align:top; text-align: left;"|9:15-10:45
| colspan="2" style="vertical-align:top; background-color:#FFF8DC;"| Hackathon resumes
|-
|-
|style="vertical-align:top; text-align: left;"|8:00-8:30
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Summers_iDigBio_2017.pdf|Big Data, Museum Specimens, Access and Archiving - Lessons from #scanAllFish]]
|Adam Summers, University of Washington
|-
|-
| colspan="1" style="vertical-align:top; background-color:#FFEBCD;"|10:45-11:00
| colspan="4" style="vertical-align:top; background-color:#FFEBCD;"|'''Break'''
|-
|-
|style="vertical-align:top;"|8:30-9:00
|colspan="3" style="vertical-align:top; background-color::#eed1a9;"|[[Media:Brainerd_iDigBio2017.pdf|Video Data and Motion Analysis in Comparative Biomechanics Research]]
|Beth Brainerd, Brown University
|-
|-
| colspan="1" style="vertical-align:top; text-align: left;"|11:00-12:00
| colspan="2" style="vertical-align:top; background-color:#FFF8DC;"| Hackathon resumes
|-
|-
|style="vertical-align:top;"|9:00-9:30
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:AdrianaDePalmaJune2017iDigBio_(A.De-Palma@nhm.ac.uk).pdf|The PREDICTS Project: Projecting Responses of Ecological Diversity]]<br>In Changing Terrestrial Systems
|Adriana De Palma, Natural History Museum, London
|-
|-
|colspan="5" style="text-align: center; background-color:#eed1a9;"| '''Lunch - location dependent on weather (12:00)'''
|-
|-
|style="vertical-align:top;"|9:30-10:00
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Contreras_IDigBio_Michigan_June2017_ver3.pdf|Field Collections to Digital Data: A Workflow for Fossils and the Use of Digital Data for Reconstructing Ancient Forests]] 
|Dori Contreras, University of California Museum of Paleontology
|-
|-
| colspan="1" style="vertical-align:top; text-align: left;"|1:30-3:15
| colspan="2" style="vertical-align:top; background-color:#FFF8DC;"| Hackathon resumes
|-
|-
|style="vertical-align:top;"|10:00-10:15
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Natural_History_data_pipelines_-_Bentley.pdf|Natural History Data Pipelines:  The Good, the Bad, and the Ugly]]
|Andy Bentley, University of Kansas Biodiversity Institute
|-
|-
| colspan="1" style="vertical-align:top; background-color:#FFEBCD;"| 3:15-3:30
| colspan="4" style="vertical-align:top; background-color:#FFEBCD;"|'''Break'''
|-
|-
|style="vertical-align:top; background-color:#FFEBCD;"|10:15-10:45
|colspan="4" style="vertical-align:top; background-color:#FFEBCD;"|'''Break -  The League Second Floor Concourse'''
|-
|-
| colspan="1" style="vertical-align:top; text-align: left;"|3:30 - 4:30
| colspan="2" style="vertical-align:top; background-color:#FFF8DC;"| Demos of tools, code created<br>Discussion of next steps
|-
|-
|colspan="5" style="text-align:center; vertical-align:top; background-color:#eed1a9;"|'''Concurrent Session III - The League Ballroom (10:45 a.m. - Noon)<br>[http://idigbio.adobeconnect.com/pe7pi9wvcwj9/ Session Recording]<br>Moderator: Katelin D. Pearson'''
|-
|-
| colspan="1" style="vertical-align:top; background-color:#FFEBCD;"| 4:45
| colspan="4" style="vertical-align:top; background-color:#FFEBCD;"|'''Group photo in front of the panda diorama'''
|-
|-
|style="vertical-align:top;"|10:45-11:00
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:1Esquivel-iDigBio_stat_analysis.pdf|Using Statistical Analysis to Calculate the Size of Biodiversity Literature]]
|Alicia Esquivel, Chicago Botanic Garden
|-
|-
|-
| colspan="5" style="vertical-align:top; text-align: center; background-color:#eed1a9;"|'''Simon Goring (Earthcube) and Alex Thompson (iDigBio) will be presenting at DataPhilly (7:00) OPTIONAL<br>Arrangements for group transportation can be made'''
|style="vertical-align:top;"|11:00-11:15
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:2Reznicek-Illustrating_value_added_in_databasing_historical_collections_Entered,_proofed,_and_done.pdf|Illustrating Value Added in Databasing Historical Collections: Entered, Proofed, and Done (or Not!)]]
|Tony Reznicek, University of Michigan Herbarium
|-
|-
|style="vertical-align:top;"|11:15-11:30
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:3IDBD_Hammock.pdf|The Encyclopedia of Life v3: Constructing a Linked Data Model]]
|Jennifer Hammock, Smithsonian National Museum of Natural History
|-
|-
|style="vertical-align:top;"|11:30-11:45
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:4IDBD_Schulz.pdf|Encyclopedia of Life Version 3: New Tools for the Exploration of Biodiversity Knowledge]]
|Katja Schulz, Smithsonian National Museum of Natural History
|-
|-
|style="vertical-align:top;"|11:45-12:00
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:5Michigan-Delaunay.pdf|How do People see Biodiversity? Using a Digital Identification Key in a Citizen Science Program]]
|Mathilde Delaunay, Muséum national d'Histoire naturelle, Paris, France
|-
|-
| colspan="1" style="vertical-align:top;"|12:00-12:15
| colspan="2"  style="vertical-align:top; background-color:#FFF8DC;"|[[Media:6Damerow_DDConference_2017.pdf|Taxonomic Data Quality in GBIF: A Case Study of Aquatic Macroinvertebrate Groups]]
| colspan="2" | Joan Damerow, Field Museum of Natural History
|-
|-
|style="vertical-align:top;"|12:15-12:30
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Pearson_Digital_Data_Presentation.pdf|Hole-y Plant Databases! Understanding and Preventing Biases in Botanical Big Data]]
|Katelin D. Pearson, Florida State University
|-
|-
|colspan="5" style="text-align:center; vertical-align:top; background-color:#eed1a9;"|'''Concurrent Session IV - The League Hussey Room (10:45 a.m. - Noon)<br>[http://idigbio.adobeconnect.com/pb5kzjrwob25/ Session Recording]<br>Moderator: Priscilla Tucker'''
|-
|-
|style="vertical-align:top;"|10:45-11:00
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Punyasena_IDigBio_Conference_2017_v2.pdf|Reconstructing the Extinction Dynamics of ''Picea critchfieldii'' – The Application of Computer Vision to Fossil Pollen Analysis]]
|Surangi Punyasena, University of Illinois
|-
|-
|style="vertical-align:top;"|11:00-11:15
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|The Application of Optical Supperresolution Microscopy to the Study of Pollen Morphology
|Michael Urban, University of Illinois - Urbana Champaign
|-
|-
|style="vertical-align:top;"|11:15-11:30
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Developing_Entriprise_GIS_Kost.pdf|Developing an Enterprise GIS to Support Collections Management, Teaching, and Research]]
|Michael Kost, University of Michigan, Matthaei Botanical Gardens and Nichols Arboretum
|-
|-
|style="vertical-align:top;"|11:30-11:45
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|How Digitizing and Tagging Helped Solve the Tully Monster Mystery
|Paul Mayer, Field Museum of Natural History
|-
|-
|style="vertical-align:top;"|11:45-12:00
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|Open Source Tools for Digitization Workflows
|Mark Metz, USDA ARS SEL
|-
|-
|style="vertical-align:top;"|12:00-12:15
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Flannery_iDigBio.pdf|iDigBio and the Digital Humanities]]
|Maura Flannery, St. John's University, NY
|-
|-
|style="vertical-align:top;"|12:15-12:30
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:SandallDigitalData2017.pdf|Importance of Life Stage Capture in Dragonfly Specimen Digitization]]
|Emily Sandall, Frost Entomological Museum, Penn State University
|-
|-
|style="vertical-align:top; background-color:#FFEBCD;"|12:30-1:45
|colspan="4" style="vertical-align:top; text-align:center; background-color:#FFEBCD;"|'''Lunch (On your own) - See page 3 of [[Media:logisticsUM.pdf|logistics]] document for restaurant suggestions'''
|-
|-Digital Curation of Botanical Specimens from Isle Royale National Park
|colspan="5" style="text-align:center; vertical-align:top; background-color:#eed1a9;"|'''Poster Session - The League Vandenberg Room (1:45 - 3:30 p.m.)'''
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Widespread Sampling Bias in Herbarium Collections Identified from Comprehensively Sampled Mobilized Herbaria
|Barnabas H. Daru<br>Harvard University Herbaria
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Digital Curation of Botanical Specimens from Isle Royale National Park
|Helen DeMarsh<br>Johns Hopkins University
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Sharing Research Data: “I need to store and share data, and get recognition”
|Danielle Descoteaux, Publisher, Ecology & Biodiversity<br>Elsevier
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Esquevel_iDigBio_poster.pdf|Visually Representing a Biodiversity Literature Collection Using Metadata and Full Text Analysis]]
|Alicia Esquivel<br>Chicago Botanic Garden
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Consider the Source: A Case Study Using GBIF Data for Research on Entocytherid Ostracods
|Raquel A. Fagundo<br>North Carolina Museum of Natural Sciences
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Hackett_et_al_2017_iDIGBIO_Digital_Data_Conference.pdf|Research and Management Applications of Online Collection Data: A Case Study of Prairie Fen Biodiversity]]
|Rachel Hackett<br>Central Michigan University
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:BioBeacon_Poster_Revised.pdf|BioBeacon: An Online Field Guide to Digital Biodiversity Information Resources]]
|Jarrett Blair, Bob Hanner, University of Guelph<br>Biodiversity Institute of Ontario
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Geodeepdive_small.pdf|Identifying, Cross-referencing, and Extracting Dark Data using GeoDeepDive]]
|Erika Ito<br>University of Wisconsin-Madison
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:TaxonomicConceptMapping_Jaster_etal.pdf|Taxonomic Concept Mapping in Support of Floristic Studies]]
|Thea Jaster<br>Oregon State University
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:PotentialWithinAFlora_Jaster_etal.pdf|The Potential Within a Modern Flora]]
|Thea Jaster<br>Oregon State University
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Imago: Building a Biocollections Repository for Digital Preservation and Scientific Reproducibility
|Jennifer Laherty and Gary Motz<br>Indiana University
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:NLC_Digital_Data_poster.pdf|Exploring the Untapped Potential of CT Scanning in the Quantitative Analysis of Brachiopod Long Loops]]
|Natalia Lopez Carranza<br>University of California, Davis
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Kurator: A scientific workflow tool for data quality improvement of natural science collections data
|James Macklin<br>Agriculture and Agro-Food Canada
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:KaylinMartin_iDigBio_poster_final_pdf.pdf|Digitizing Archival Data: Ecoinformatics in the Alcohol House]]
|Kaylin Martin<br>Carnegie Museum of Natural History
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Biodiversity Literacy in Undergraduate Education (BLUE): Opportunities for Collaboration
|Anna Monfils<br>Central Michigan University
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Tdwg2016GloBIPoster_(1).pdf|Global Biotic Interactions: A Case Study in Ecological Data Aggregation]]
|Jorrit Poelen<br>Global Biotic Interactions
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:ShireyV36x48Unmounted_(1).pdf|Big Data Opportunities in Ecological and Biodiversity Informatics: A Functional Trait Perspective]]
|Vaughn Shirey<br>The Academy of Natural Sciences of Drexel University
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|The Value of Digital Morphology for Understanding Plant (Paleo) Biodiversity
|Selena Smith<br>University of Michigan
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|Automatic Generation of Herbarium Labels from Spreadsheet Data using LaTeX
|R. Sean Thackurdeen<br>New York Botanical Garden
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Wildbook-poster-2017.pdf|Wildbook: Computer-assisted Identification of Crowd-sourced Wildlife Imagery]]
|Jon Van Oast<br>Wild Me
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Westeen_poster_mockup_iDigBio.pdf|Patterns and Processes in the Evolution of Opisthoglyphous Fangs in Colubrid Snakes]]
|Erin Westeen<br>University of Michigan
|-
|-
|colspan="4" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Yapuncich_et_al_2017_DLC_cadavers.jpg|Digitization of Strepsirrhine Primates from the Duke Lemur Center]]
|Gabriel Yapuncich<br>North Carolina State University
|-
|-
|style="vertical-align:top; background-color:#FFEBCD;"|3:30-4:00
|colspan="4" style="vertical-align:top; background-color:#FFEBCD;"|'''Break -  The League Second Floor Concourse'''
|-
|-
|colspan="5" style="text-align:center; vertical-align:top; background-color:#eed1a9;"|'''Capstone Session<br>[http://idigbio.adobeconnect.com/pd8z98sahwgk/ Session Recording]<br>Moderator: Gil Nelson'''
|-
|-
|style="vertical-align:top;"|4:00-4:30
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:Donoghue_Michigan_slides_final.pdf|Prospects for the Use of Digitized Specimens in Studies of Plant Diversity and Evolution]]
|Michael Donoghue, Patrick Sweeney, and Beth Spriggs, Yale University
|-
|-
|style="vertical-align:top;"|4:30-5:00
|colspan="3" style="vertical-align:top; background-color:#FFF8DC;"|[[Media:McCartneyDigitalDataBiodiversity.pdf|A Vision for a National Cyberinfrastructure for Biodiversity Research and what NSF can do Enable it]]
|Peter McCartney, National Science Foundation
|-
|-
|}
|}
Jsessa
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