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Species Occurrence Phase One

March 22-26, 2019 Daily Standup: 10:00-10:30am PDT (15-30 minutes)

Objective: TAXA a species occurrence verifier. A prototype records verification application that allows human oversight/verification for machine-identified species occurrences. The result will be a list of species occurrences extracted automatically from student papers. Readers will be able to approve or edit records. Approved records can be output (csv file) for upload to the Hopkins GBIF node. Visualizations to aid the evaluation (if time allows):

• contextual annotated text
• mapped locations.
• Data lookup in WoRMS, GBIF, and/or Wikidata

Communication channels/Quick links:

• Daily meeting notes
• #ai-marinetext (Slack): Zoom link, Github updates and quick exchanges
• Github Project: Write issues, annotate and track progress
• Wiki (here): Daily standup notes and project timeline
• Jupyter Book: Documentation
• SPOC Drive:Student papers, locations, habitat, species:

Work Plan

Step 1 - First output March 22-23

• Output a list of genus/species, time, location
• Contextual Text annotation viewer
• Refined mock-ups and final output of verifier.

Step 2 - First review March 23

Evaluate genus/species identification

• How is WoRMS working? Having success? Do we need to modify?

Evaluate time

• What kind of time indication do we get from the content, if any. How often are we relying on the metadata?

Step 3 - Location - display / lookup Map March 24-25

• https://deck.gl/
• Yes/No annotation to the record

Step 4. Review/evaluation of mapping the data March 24-25

Step 5. GBIF API Integration March 26

Prepare output to GBIF and learn how GBIF data can help

Step 6. Documentation - Throughout the process

Move notes and outcomes to the Jupyter Book

Topics

Models and Methods

Data sources and knowledge graphs

SPOC Verifier