Sharing code, figures and tables in the laboratory ... using GitHub

• 3rd July 2017 (2:45-3:30 pm), Room 313, Cancer Research UK - Cambridge Institute (CRUK-CI), University of Cambridge, UK

Summary

This will be a discussion with members of the CRUK-CI Bioinformatics Core. It will start with a broad overview of our efforts to share research computer code, figures and tables with our experimental collaborators in a robust and reproducible manner using GitHub. I will cover how we share while research projects develop, as well as during pre/post-publication. Finally I aim to discuss areas where we aim to improve further.

Contents

• The laboratories and context
• The past: Redmine
• The present: GitHub
  • Structure
  • Case study: The glioblastoma project

Slides

20170703_GitHubintheLab_slides.pdf

Materials and references

• Mozilla Science Lab course
• Happy Git and GitHub for the useR book by Bryan J. et al.
• Ten Simple Rules for Taking Advantage of Git and GitHub by Perez-Riverol Y. et al.

Suggestions and ideas

• include versions of the manuscript preparation in our public github shares released with the publication
• freeze version of the software code when paper is published and continue further development in new versions
• gitter
• GitLab allows hierarchies (subgroups) of projects