Foundations of Data Science
These lessons will help you get your feet in data science and give you tools to help you slice and dice your data into results.
You can view the tutorial materials in different languages by clicking the dropdown icon next to the slides (slides) and tutorial (tutorial) buttons below.Material
Data Manipulation Olympics
These tutorials take the same dataset, and show you how to slice and dice it in numerous languages
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
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| Data Manipulation Olympics - JQ | |||||
| Data Manipulation Olympics - SQL | |||||
| Data visualisation Olympics - Visualization in R |
Bash
These lessons focus on using the Command Line Interface (CLI) and Bash for processing data.
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
| Advanced CLI in Galaxy | |||||
| CLI Educational Game - Bashcrawl | |||||
| CLI basics |
Python
These lessons focus on coding in Python
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
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Introduction to Python
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Advanced Python
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Plotting in Python
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Python (Modular)
These lessons cover coding in Python except they attempt to be very modular, having few interdependencies, allowing you to re-arrange or insert them in your existing course curriculum as needed.
R
These lessons focus on coding in R
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
| R basics in Galaxy | |||||
| Advanced R in Galaxy | |||||
| dplyr & tidyverse for data processing |
SQL
Here you'll learn to use SQL to query databases and extract meaningful results from them.
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
| Advanced SQL | |||||
| Introduction to SQL | |||||
| SQL Educational Game - Murder Mystery | |||||
| SQL with Python | |||||
| SQL with R |
Scientific Workflow Management Systems
Here you can find brief tutorials on a couple different workflow engines that you might encounter in the wild.
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
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Make & Snakemake
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Introduction to Genomics
A data- and galaxy-driven introduction to genomics
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
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Other
Assorted Tutorials
| Lesson | Slides | Hands-on | Recordings | Input dataset | Workflows |
|---|---|---|---|---|---|
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Basics of using Git from the Command Line
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Variant Calling Workflow
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Version Control with Git
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Galaxy instances
You can use a public Galaxy instance which has been tested for the availability of the used tools. They are listed along with the tutorials above.
Frequently Asked Questions
Common questions regarding this topic have been collected on a dedicated FAQ page . Common questions related to specific tutorials can be accessed from the tutorials themselves.
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Editorial Board
This material is reviewed by our Editorial Board:
Helena Rasche
Saskia Hiltemann
Fotis E. Psomopoulos
Bérénice Batut
Yvan Le Bras
For any question related to this topic and the content, you can contact them or visit our Gitter channel.
Contributors
This material was contributed to by:
Avans Hogeschool
Helena Rasche
Bérénice Batut
Marius van den Beek
Toby Hodges
Lisanna Paladin
Donny Vrins
Fotis E. Psomopoulos
Peter van Heusden
Maria Christina Maniou
The Carpentries
Anton Nekrutenko
Bazante Sanders
Sofoklis Keisaris
NU Knight Lab
Saskia Hiltemann
Teresa Müller
Funders
This material was funded by:
Gallantries
BioNT