Open Science for Synthesis 2017

Gulf Research Program

NCEAS

Matthew B. Jones, Amber Budden, Christopher Lortie

July 10-28, 2017

Sponsor: Gulf Research Program, National Academy of Sciences

Instructors

Matt Jones, Amber Budden, Chris Lortie
Bryce Mecum, Leah Wasser, Julien Brun, Tracy Teal

NCEAS Synthesis

Ecology of Infectious Disease

Climate Effects

Threats and Population Declines

Understanding Ocean Health

Ocean Health Index

Science

An index to assess the health and benefits of the global ocean Halpern et al. Nature, (30 August 2012) DOI: 10.1038/nature11397

Data

Software

Synthesis in the Gulf Research Program

Environment
Energy
Health

Natural systems
Human societies
Engineered systems

Introductions

Participant bios: https://www.nceas.ucsb.edu/OSS2017
Name, brief bio, project interests
Software you love, or love to hate

Course Topics

Collaboration modes and technologies, virtual collaboration
Data management, preservation, and sharing
Data manipulation, integration, and exploration
Scientific workflows and reproducible research
Programming using agile and sustainable software practices
Data analysis and modeling
Communicating results to broad communities

Curriculum

Week 1: Fundamental data and collaboration skills

Introduction to command line, communicating science, R, meta-analysis and data management.

Week 2: Towards efficient and reproducible research

Tabular data, reproducible research and coding, and metagenomics.

Week 3: Advanced topics & group projects

Communication, geospatial analysis, data viz, and synthesis project results.

View the Full Schedule

Communications

Slack

https://slack.nceas.ucsb.edu, Channel #oss
Daily discussion
Questions, comments, additional links
We will create channels for each of the synthesis projects as well

Parking Lot

https://github.com/NCEAS/oss-2017/labels/ParkingLot
Running issues that we need to resolve
- Especially if off-topic, or lengthy discussion
Add anything you’d like addressed
Create one issue per discussion item
We'll review each morning

Daily Schedule

Course materials and resources

Course materials will be downloadable

Lessons and code examples: https://nceas.github.io/oss-2017/lessons.html
- Plus raw source code in GitHub: https://github.com/NCEAS/oss-lessons
Reading list by day: https://nceas.github.io/oss-2017/readings.html

Peanut Gallery

Your time to {comment, question, dance, sing, discuss, act, joke, play, …}

Code of Conduct

Governs our interactions
Collaborative Community Document
- http://bit.ly/OSSGRP-CoC

Acknowledgements

OSS2017 was funded under a grant from the Gulf Research Program, National Academy of Sciences

This work is licensed under a Creative Commons Attribution 4.0 International License.