Open Science in Bioinformatics WorkshopAugust 9-10, 2018
The schedule can be found in the workshop repository here.
The link(s) to the presentation(s) can be found below.
- Welcome: Open Science Seminar - In this presentation, we'll give a quick recap of our seminar for the benefit of those who did not attend. It also serves as our introduction
- Learn Command line: Link to training materials for this session.
- command-line bootcamp: Learn command-line at your own pace using this tutorial
- Introductory Markdown: Link to training materials for this session.
- Markdown Markdown-Cheatsheet: A reference guide to basic markdown syntax.
- Teaching Git: Link to training materials for this session.
- Friendly GitHub: Link to slides used in this session.
- Friendly Github Workshop Repository: .
- Reproducible Research with RStudio: Link to training materials for this session.
- RMarkdown-Cheatsheet: A reference guide to basic markdown syntax.
- Reproducible Research with Jupyter: Link to training materials for this session.
Introduction to Command line
A quick introduction to the basics of the command line.
A quick introduction to the basic markdown syntax. This is a pre-requisite to working with GitHub and Literate programming tools (Rstudio, Jupyter)
Git and GitHub
Learn how to create and use GitHub for collaborative research and coding projects. We will introduce how you can set up local git repositories, and how to push the local changes to GitHub.
We introduce the power of Rstudio for collaborative and reproducible research using R.
We introduce how you can harness the power of Jupyter Notebooks for collaborative and reproducible research using Python. Jupyter notebooks can also be used with Julia and R.
We have a living etherpad where we will be collecting any questions from participants and answering either on a rolling basis or after the workshop. Hop on the pad if you've got questions, comments, or want to help answer any of the questions.
Here we'll hopefully answer questions you might have.
What is the workshop hashtag?
- Tweet with #OpenScienceKE
Where is it being held?
- KENET Training Lab, Jomo Kenyatta Memorial Library, University of Nairobi
What is the WIFI code?
Where can I find the Code of Conduct?
We subscribe to the Science lab code of conduct, which you can find here. In summary, we subsribe to the golden rule: Do unto others as you would have them do unto you.
Who can I approach if I have any problems or issues to report that violate our Code of Conduct?
Here we'll list some persistent resources that you might use throughout the workshop.
Post Workshop Survey