Working Open Workshop

https://mzl.la/2017wow

At our second Working Open Workshop, Mozilla Science Lab staff, Fellows and community will run a set of trainings to help prepare open science projects for a successful Global Sprint in June 2017. This page will serve as a resource for all session materials.

Schedule

The schedule can be found in the workshop repository here, the following handouts are ordered according to the scheduled session times.

Presentations + Exercises

Each session has a ten-minute presentation. Slides for these presentations are linked below. Exercises can be completed during work sessions.

Day I

Day II - Morning

Day II - Lunch

Day II - Afternoon

Notes

Sessions

Session notes and resources will be recorded here.

Help

  1. Getting Help

    Here we'll hopefully answer questions you might have.

    • What is the WIFI code?

      • Public-Notman
    • What is our event hashtag?

      #mozwow

      Twitter List

    • Is there a chat room?

      Yes, we have a Gitter chat room.

    • Where can I find the Science Lab Code of Conduct?

      You can find it here. We'd love for feedback on how it could be improved.

    • Who can I approach if I have any problems or issues to report that violate our Code of Conduct?

      In coordination with our Code of Conduct, we have two appointed members of our "safety team" responsible for maintaining the ethos of that code throughout the event, and providing help or resources to anyone who might require it. Reach out to the following people if you have questions, issues, or concerns that you wish to express.

      • Aurelia Moser - @auremoser, aurelia@mozillafoundation.org
      • Peter Grabitz - @petergrabitz, peter.grabitz@charite.de
  2. Finding Resources

    Here we'll list some persistent resources that you might use throughout the workshop.

Glossary

OLC

Open Leadership Cohort is a group of participants who have a shared experience and goal - to help further open practice in their work and community. It's what the WOW participants will be inducted into, you can read more about it on this blog.

Fellows

The Mozilla Science Lab has a group of awesome fellows in our annual fellowship program, the 2016 fellows are present at WOW, and will be co-running sessions throughout the event.

Participants

Meet your mentors!

These folk are here to support and help you! They will help facilitate trainings and provide and ongoing mentorship after the Workshop leading up to the Global Sprint.

Abigail Cabunoc Mayes (@abbycabs)

code, science, open source and prototyping @mozilla (web + science = ) alum:@OICR_news @wormbase @uwaterloo
GitHub: @acabunoc

Achintya Rao (@RaoOfPhysics)

Science communicator at CERN and PhD student in scicomm at UWE Bristol. Interested in open practices across all stages of research.
GitHub: @RaoOfPhysics

Alissa Nedossekina (@snowwitje)

UX | Science | Open Source | Open Mind developer @hubzeroplatform, Purdue University
GitHub: @snowwitje

Bastian Greshake (@gedankenstuecke)

PhD student in applied bioinformatics & co-founder of openSNP.org
GitHub: @gedankenstuecke

Bruno Miguel Pereira Vieira (@bmpvieira)

PhD Student at @wurmlab; @mozillascience Fellow; Founder of @bionode;
GitHub: @bmpvieira

Danielle Robinson (@daniellecrobins )

Advocacy for science and the open web / 2016 @MozillaScience Fellow / Freshly defended Neuroscience PhD @OHSUSOM / hangs with librarians / party mom / @wispdx
GitHub: @daniellecrobinson

Madeleine Bonsma (@mbonsma)

PhD student in physics @ University of Toronto studying CRISPR systems, UofT Scientific Coders president :)
GitHub: @mbonsma

Peter Grabitz (@petergrabitz)

Medical student from Berlin. Former Associate Technical Officer @WHOatEU. Access to knowledge
GitHub: @petergrabitz

Teon Brooks (@teon_io)

cognitive [neuro]scientist. Out. @MozillaScience Fellow. Former @NSFGRFP @ChateaubriandUS Fellow. @MNE_news, @NeuroTechX. #OpenScience #OpenSource #BlackandSTEM
GitHub: @teonbrooks

Tim Head (@betatim)

Scientific brain for hire. Used to work at CERN, now a data science consultant and open-sourcer
GitHub: @betatim

Participants

We're bringing together open science enthusiasts to share and learn working open best practice in research.

April Clyburne-Sherin (@april_cs)

Sense About Science USA, OOO Canada
Brooklyn, NY, USA
GitHub: @aprilcs

Caitlin Owen

Open Research group at Mcgill
Montréal, QC, Canada

Daniela Saderi (@Neurosarda)

Oregon Health & Science University (OHSU)
Portland, Oregon

Dano Morrison (@sequencedc)

EEG 101 / UofT Coders
Toronto, Canada
GitHub: @jdpigeon

Grant R. Vousden-Dishington (@usethespacebar)

Mozilla Open Leadership Training
Monterey, CA, USA
GitHub: @GrantRVD

Hao Ye (@hao_and_y)

University of California San Diego
San Diego, CA, USA
GitHub: @ha0ye

Heather Lent

ResBaz / Lyons Lab / University of Arizona
Tucson, AZ, USA

Jason A. Clark (@jaclark)

Montana State University (MSU) Library
Derry, NH (on sabbatical) from Bozeman, MT
GitHub: @jasonclark

Julian Pistorius (@jpistorius)

ResBaz Arizona, CyVerse, University of Arizona
Tucson, AZ, USA
GitHub: @julianpistorius

Kevin Moerman (@KMMoerman)

MIT Media Lab
Cambridge MA, USA
GitHub: @Kevin-Mattheus-Moerman

Leslie Cheung

Powered by Data
Montréal, QC, Canada

Lina Tran (@Lmntran)

University of Toronto
Toronto, Canada
GitHub: @linamnt

Lucy Patterson (@lu_cyp)

Science Hack Day Berlin
Berlin, Germany

Lukas Geiger (@_lgeiger)

Student at RWTH Aachen University
Aachen, Germany
GitHub: @lgeiger

Luke Johnston (@lwjohnst)

University of Toronto
Toronto, ON, Canada
GitHub: @lwjohnst86

Monica Granados (@Monsauce)

University of Guelph/Wildlife Conservation Society Canda
Guelph/Toronto, Canada
GitHub: @Monsauce

Paul Villoutreix (@paulvilloutreix)

Princeton University & New School
New York, NY
GitHub: @paulvill

Rajat Bhateja

McGill
Montréal, QC, Canada

Sydney Swaine-Simon

NeuroTechX
Montréal, QC, Canada

Tanja Pelzmann

École Polytechnique Montréal
Montréal, QC, Canada

Timothée Poisot (@tpoi)

Université de Montréal
Montréal, QC, Canada
GitHub: @tpoisot

Tyler Kolody (@TylerKolody)

McGill University
Montréal, QC, Canada

William Kearney (@wskearney)

Boston University
Boston, MA, USA
GitHub: @wkearn

Yannick Roy (@_yroy_)

NeuroTechX
Montréal, QC, Canada

From Mozilla

Abigail Cabunoc Mayes (@abbycabs)

code, science, open source and prototyping @mozilla (web + science = ) alum:@OICR_news @wormbase @uwaterloo
GitHub: @acabunoc

Arliss Collins (@arlissc99)

Mozilla Foundation
Toronto, ON, Canada
GitHub: @arlissc

Aurelia Moser (@auremoser)

Community + Code, Mozilla Science Lab
GitHub: @auremoser

Rizwan Tufail (@rtufail)

Mozilla Advisor
GitHub: @rtufail

Stephanie Wright (@shefw)

Program Lead, Mozilla Science Lab
GitHub: @stephwright

Projects

Here are the projects and people joining the Working Open Workshop from Mozilla's Open Leadership Training Round 3.

DIY science network

Lucy Patterson
Building a network of grassroots community-led, often volunteer-run citizen science/DIY science projects. The idea is to map and network our diverse communities, support each other through collaboration, sharing of tips, experience and information about funding opportunities, to help build a bridge towards funding organisations and policy-makers, and to support constructive collaboration with different partners.

EEG 101

Dano Morrison
An interactive tutorial teaching EEG basics with the Muse headband (Android app).

GIBBON: The Geometry and Image-Based Bioengineering add-On

Kevin Mattheus Moerman
GIBBON (http://www.gibboncode.org) is an open-source toolbox and includes image segmentation, computer aided design, surface and solid meshing tools, and is interfaced with free open source software such as TetGen, for robust tetrahedral meshing, and FEBio for finite element analysis. The combination provides a highly flexible image-based modeling environment and enables advanced computational modeling and computational design.

nteract

Lukas Geiger
nteract is an ecosystem of open-source, desktop-based, interactive computing tools. The nteract notebook (https://nteract.io/), allows individuals to create documents that contain executable code, rich text, and images to convey a computational narrative compatible. Furthermore the nteract community develops Hydrogen (https://github.com/nteract/hydrogen), an open source package for the Atom text editor that allows users to run code with an interactive REPL session with your language of choice.

Open the North

Monica Granados
If you unfold a map of the Province of Ontario and follow the highway northbound you would find that it abruptly ends. Yet, beyond that road lie thousands of people disconnected from scientific resources in the south. Open the North aims to connect indigenous communities in the Far North with scientific data relevant to the interests of their community, provide a portal for these communities to participate in open science and a medium to share traditional knowledge and local scientific data.

Reproducible Research in Ocean Biosciences and Open-science Training

Hao Ye
This seminar course is aimed at graduate students who have completed introductory classes in statistics and programming and are thinking about data analyses for their thesis projects. The goal is for students to develop technical skills (e.g. literate programming, version control), while also reproducing statistical analyses from the literature to gain first-hand experience with the data analysis workflow for scientific research.

ResBaz

Julian Pistorius and Heather Lent
The Research Bazaar is a worldwide festival promoting the digital literacy emerging at the center of modern research. Includes weekly events - Hacky Hour, PhTea, Shut Up & Write, Software Carpentry-style workshops, and community building. We are the second ResBaz chapter in the USA.

Semantic Modeling of Researcher Networks: Applying Linked Open Data for Discovery

Jason A. Clark
I have built prototype software that allows one to visualize research and networks of expertise based on researcher interests and research collaborations. I have secured a partnership with the Montana State University (MSU) - Center For Biofilm Engineering (CBE) to describe Bioscience data for the next stage of the project. This work applies a novel methodology for describing researcher's networks and areas of expertise through the application of linked open data (LOD).

The Method: a podcast

April Clyburne-Sherin
A peer-reviewed, open source podcast about the state of science.

The Open Neuroimaging Masters

Grant R. Vousden-Dishington
Inspired by The Open Data Science Masters project (datasciencemasters.org) by Clare Corthell, the goal is to assemble a syllabus of predominantly digital resources available to anyone who wants to learn how to do neuroimaging. To succeed, the project will need to create a webpage with enough links to free and low-cost materials in neuroscience and data-analysis to enable everyone with an undergraduate degree, regardless of field, to make progress toward understanding principles of neuroimaging.

Why not Open Science? Listening as a means to guide action.

Daniela Saderi and Amie Fairs (remote)
We will develop a survey to explore the underlying reasons for failure to adopt open-science (OS) practices in academia. The survey will seek to: 1) Understand researchers’ knowledge of and engagement with OS practices; 2) Learn about obstacles that prevent them from engaging in OS practices; 3) Ask what would incentivize them to adopt OS practices. First we will test the survey in our home institutions, but our goal is to distribute the survey to other academic institutions across the globe.