Video recording and production done by Enthought.
The tutorial will cover four hours with the following topics
History of scientific societies and publications
Leeuwenhoek was the Man !
The Invisible College
Nullius in Verba
Replication of the early microscope experiments by Leeuwenhoek[a][b]
Image Acquisition (15 min)
Hands on: Cell camera phone microscope
With drop of water
Hands on: Each pair acquires images
Data Sharing (45min)
Image gathering, storage, and sharing (15min)
Hands on: Upload the images
Metadata Identifiers (15 min)
Hands on: Create data citation and machine readable metadata
Hands on: Download data via RESTful API (15min)
Hands on: Download the data via HTTP
Local processing (60min)
Replication Enablement (20min)
Create a virtualenv
Run our tutorial package verification script
Revision Control with Git (20min)
Keeping track of changes
Forking a repository in GitHub
Cloning a repository
Creating a branch
Making a commit
Pushing a branch
Create pull request
Python scripts (20min)
Data analysis, particle counting.
Run scripts on new data
Generate histogram for the data
Unit testing with known data
Regression testing with known data
Add coverage for another method to the unit tests
Publication Tools (30min)
RST to HTML
GitHub replication and sharing
Run dexy to generate the document
Reproducibility Verification (30min)
Publication of Positive and Negative results
Create Open Science Framework (OSF) project
Connect Figshare and Github to OSF project
Fork or link another group’s project in the OSF to run dexy on their work
Attendees will use software installed in their laptops to gather and process data, then publish and share a reproducible report.
They will access repositories in GitHub, upload data to a repository and publish materials necessary to replicate their data analysis.
We expect that wireless network will be have moderate bandwidth to allow all attendees to move data, source code and publications between their laptops and hosting servers.