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Module: SARS-CoV-2 Data Analysis

This module covers the contents of the SARS-CoV-2 with Galaxy course, first run in August 2021

Introduction to Galaxy

Lecture & Demo Video

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Tutorial Video

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Demo Video

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Data Upload & Quality Control

In this sesssion, we will walk you through the basics of quality checking your sequencing data. This session consists of a lecture followed by a hands-on tutorial.

Quality Control (Lecture)

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Quality Control (Tutorial)

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In this sesssion, we will walk you through the basics of mapping your sequencing data to a reference genome. This session consists of a lecture followed by a hands-on tutorial.

Mapping (Lecture)

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Mapping (Tutorial)

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Tutorial Video

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Self-study Tutorial

This is a self-study session. Please work through the materials on your own, and ask the instructors for help if you get stuck or have any questions!
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SARS-CoV-2 Data Analysis on Public Datasets

Tutorial Video

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Tutorial Video

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Tutorial Video

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Demo Video

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Visualisation & Data Export

Accelerating Research through data sharing

Note: This is a training session outside of the GTN. Please contact the authors if you have questions.

Demo Video

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Lecture & Tutorial Video

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Demo Video

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Demo Video

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Optional Extra Training

This session will introduce the SRA Aligned Read format, and show you how to use this in Galaxy to analyze a SARS-CoV-2 dataset.

SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis (Lecture)

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SRA Aligned Read Format to Speed Up SARS-CoV-2 data Analysis (Tutorial)

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Tutorial Video

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Lecture & Demo Video

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Self-study Tutorial

This is a self-study session. Please work through the materials on your own, and ask the instructors for help if you get stuck or have any questions!
image indicating this is a self-study session.

Case Studies: What you can do with SARS-COV-2 data

Learn what you can do with SARS-CoV-2 data

Note: This is a training session outside of the GTN. Please contact the authors if you have questions.