OSCON 2011 presentation

1. Practicing
Open Science
William J Schroeder, Kitware, Inc.
Brian Wylie, Sandia National Labs
Marcus Hanwell, Kitware, Inc.

2. Speakers & Topics
 William Schroeder, President & CEO, Kitware, Inc.
- The whys and hows of Open Science
 Dr. Marcus Hanwell, R&D Engineer, Kitware, Inc.
- Building an open-source research program
 Brian Wylie, Sandia National Labs
- Research collaborations from a government perspective

3. The Scientific Method
• Document
• Share
• Data
• Methodology
• Archive
Galileo Galilei 1613

4. Open Science
Ensuring reproducibility
 Open Documents
- Hypothesis
- Descriptions REPRODUCIBILITY
- Results
Positive Evidence Negative Evidence
 Open Data
Accumulate Disproof
Support Hypothesis
 Open Methodology
- Experimental apparatus
- Software If it isn’t reproducible, it isn’t
- Workflow science
- Parameter Sets

5. Example: Insight Journal
 Timely publishing of publications, data, and software
 Evaluated automatically; further reviewed by community
PDF doc
Journal Git
Repository
Code
Input
Author Data
Results Web Build
Data Site Machines

6. Example: OSA Interactive Science Publishing (ISP)
 Augmented PDF
 Contains links to executable viewer
 Downloads data and viewer as necessary to reproduce
paper images (results)

7. Benefits of Open Science
 Collaboration “…much of our intelligence and creativity
results from interactions with tools and
- Leveraging international communities artifacts and from collaborating with other
and expertize individuals.”
-- Shneiderman
 Innovation
- Facilitate technology mashups
- Move science to application faster
- More focus on technology; less on protection
 Business Models
- Growing the pie, creating new opportunities
- Customization, software integration

8. Example: Collaboration
 NIH National Center of Biomedical Computing NA-MIC
 Developing the OS NA-MIC Kit; 3D Slicer application

9. Example: Innovation (Open Source for Medical Imaging)
Creating VTK (Visualization
Toolkit)
Led to the creation of:
- ITK
- VolView
- BioImageXD
- Osirix
- MedINRIA
- VisTrails
- NIH / NCI caBIG – XIP
- VR-Renderer
- IGSTK
- ParaView
- Etc….

10. Example: Business Models
 Kitware: Building open source collaboration
platforms
- Engaging in collaborative R&D
- Providing technology integration services
- Creating custom solutions
CMake
CDash

11. The Open Technology Highway
 Provide an open infrastructure
- Support research, teaching, non-profit
and commercial activities
- Any (legal) activity can hang off of the highway
- Spur innovation, create opportunities
- Get from idea to product faster
- Do not have to replicate technology
- Too many toll gates (i.e., closed systems)
slows everything down

12. Next Up
 Marcus: Building a research program for chemistry
 Brian: open science and research collaboration from a government perspective