About this course: Learn to use the tools that are available from the Galaxy Project. This is the second course in the Genomic Big Data Science Specialization.
Created by: Johns Hopkins University
Taught by: James Taylor, PhD, Associate Professor of Biology and Computer Science
| Basic Info | Course 2 of 8 in the Genomic Data Science Specialization |
| Language | English |
| How To Pass | Pass all graded assignments to complete the course. |
| User Ratings |
Syllabus
WEEK 1
Introduction
This week, we will present some of the research challenges that motivated the development of the Galaxy framework. We will then introduce Galaxy, describe what the Galaxy framework is, and look at different ways you can use it.
2 videos, 4 readings
- Reading: Welcome
- Reading: Syllabus
- Reading: Pre-Course Survey
- Reading: A Note about AWS
- Video: Challenges of Reproducibility
- Video: Introduction to the Galaxy Platform
Graded: Module 1 Quiz
WEEK 2
Galaxy 101
In this module and the following modules we will start to use Galaxy to perform different types of analysis.
3 videos
- Video: Galaxy 101: Genomic Intervals
- Video: Galaxy 101: Workflows
- Video: Annotation, Sharing, and Publishing
Graded: Module 2 Quiz
WEEK 3
Working with sequence data
In this module we will be studying sequence data quality control as well as ChIP-Sequence Analysis with MACS.
2 videos
- Video: Sequence Data Quality Control
- Video: ChIP-Sequence Analysis with MACS
Graded: Module 3 Quiz
WEEK 4
RNA-seq & Running your own Galaxy
In these final modules, we'll take a look at working with sequence data and RNA-seq and at installing and running your own Galaxy.
4 videos, 1 reading
- Video: RNA-seq Analysis: Mapping
- Video: RNA Sequence Analysis: Assembly Quantitation, and Differential Expression
- Video: Installing Galaxy Locally
- Video: Galaxy on the Cloud
- Reading: Post-Course Survey
Graded: Module 4 Quiz
Graded: Module 5 Quiz
Graded: Course Project
FAQs
How It Works
Coursework
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Creators
Johns Hopkins University
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Pricing
| Audit | Purchase Course | |
|---|---|---|
| Access to course materials | Available | Available |
| Access to graded materials | Not available | Available |
| Receive a final grade | Not available | Available |
| Earn a shareable Course Certificate | Not available | Available |
Ratings and Reviews
pretty easy to follow--
Otimo curso! Muito claro e objetivo!
Good course, I learned a lot... I have to wait about a week to being the peer-reviewed project, which was disappointing because I was ready to finish the course! Prof. Taylor instructs well, but if you're not following along, don't expect to understand what's going on...
Most of the bad reviews are from the project, which I don't have access to. I really hope it's not as bad as people suggest...
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This course offers a practical way to start NGS data analysis with Galaxy, and a overall concept about what to do when we handle Genomic Data, with less pain.